A List of Real D-Amino Acid Residues in the PDB

This list of D-amino acid residues in the PDB was prepared by John Mitchell. It reflects the data in the PDBsum and PDBREPORT databases as at 19^th June 2002, together with the April 2002 release of the PDB. It is intended to provide an aid to the differentiation between 'real' D-residues and 'artefacts'.

An account of this work has been published in the following article, which should be cited if you use this data in any published work:

D-Amino Acid Residues in Peptides and Proteins,
J.B.O. Mitchell & J. Smith,
Proteins: Structure, Function & Genetics, 50, 563-571 (2003)
doi: 10.1002/prot.10320
PMID 12577262

If you wish to make comments or suggest changes to this document, you may mail jbom@st-andrews.ac.uk.

Date of last substantive change to this file 6^th February 2003.

This document contains

* a list of the representative dataset of 'real' D-residues in LDL local configurations, (that is a D-residue preceded and followed by L- or glycine residues) this has all 'duplicates' removed and includes phi, psi & zeta torsion angles (currently 40 residues from 27 PDB entries),
* a list of 'real' D-residues in LDL local configurations, this includes phi, psi & zeta torsion angles (currently 264 residues from 64 PDB entries),
* a list of all real D-residues including canonical amino acids only (currently 492 residues from 148 PDB entries),
* a list of D-configurations of unnatural and modified amino acids (currently 21 residues from 14 PDB entires),
* a list of structures thought to contain real D-residues but excluded due to poor zeta angles (3 PDB entries)
* and a list of those PDB structures whose apparent D-residues are thought likely to be artefacts (186 PDB entries).
* There is also a disclaimer and acknowledgements.

Note: PDB entry 1krl contains the structure of racemic DL-monellin in the centrosymmetric P-1 space group. This is a co-crystal of the all-L and (synthetic) all-D forms of the protein. The asymmetric unit consists solely of L-monellin, with D-monellin being generated by the appropriate inversion symmetry operation. DL-monellin undoubtedly contains real D-residues, though the PDB co-ordinates contain only L-configurations of chiral residues. I have decided not to include 1krl in the lists given here. Note also that D-monellin has no LDL local configurations; most of are DDD and there are no Gly-X-Gly residue triplets.

(To interpret headings, see explanatory notes further down this page)

Representative Set of Real D-Residues in LDL Local Configurations

Code Res Rna  Rnu  Con Exptyp   SS   phi    psi    zeta     # Details

1mcb PHE PHE P   2 ldl X  2.70     60.00 -105.14  -32.20    5 ace-gln-d-phe-his-d-pro-oh
1mcc PHE PHE P   2 ldl X  2.70     75.99  -31.40  -31.54    5 ace-gln-d-phe-his-d-pro-nh2
1a7z VAL DVA A   2 ldl X  0.95  B  81.25 -125.97  -33.39 C  5 actinomycin z3
1vbs ALA DAL B   3 ldl X  2.00  B  84.51 -121.59  -34.08    5 ala-d-ala-pro-phe-nit
1mce PHE PHE P   2 ldl X  2.70     61.93  -79.13  -31.82    6 ace-gln-d-phe-his-d-pro-bal
1mce PRO PRO P   4 ldl X  2.70    115.90 -163.94  -37.71    6 ace-gln-d-phe-his-d-pro-bal
1mcf PHE PHE P   2 ldl X  2.70    -85.60   52.58  -25.62    7 ace-gln-d-phe-his-d-pro-bal-bal
1mcf PRO PRO P   4 ldl X  2.70  T  43.10  -18.59  -34.56    7 ace-gln-d-phe-his-d-pro-bal-bal
1tmb PHE PHE T  51 ldl X  2.30    158.99 -118.82  -30.48 C  7 cyclotheonamide
1fjm ALA DAL M   6 ldl X  2.10     76.84    7.58  -35.38 C  7 microcystin-lr toxin
1soc TRP DTR     4 ldl N  1/1   T  66.55 -127.18  -33.14    8 sandostatin (beta structure)
2soc TRP DTR     4 ldl N  1/2   G  72.30 -128.14  -34.11    8 sandostatin (helical structure)
1qfb TRP DTR A   4 ldl N  1/20  S 123.94  -29.77  -36.67    9 contryphan-r
1fja VAL DVA C   3 ldl N  1/5   B  82.30 -110.79  -33.70   11 actinomycin d
1fja VAL DVA C   8 ldl N  1/5   B  87.21 -114.76  -34.61   11 actinomycin d
1ikf ALA DAL C 508 ldl X  2.50  S 100.77 -127.83  -35.16 C 11 cyclosporin
1cwb ALA DAL C   8 ldl X  2.20  T  92.97 -139.16  -35.65 C 11 cyclosporin (modified)
2rmc ALA ALA H   8 ldl X  1.64  S  87.20 -132.85  -35.53 C 11 cyclosporin a
1b0q PHE DPN     4 ldl N  1/1   S 164.79 -140.89  -33.82   12 dithiol melanotropic peptide
1alz LEU DLE A   4 ldl X  0.86  E  92.07 -138.78  -35.18   17 gramicidin d
1alz LEU DLE A  10 ldl X  0.86  E 105.25 -143.05  -34.99   17 gramicidin d
1alz LEU DLE A  12 ldl X  0.86  E 101.10 -134.62  -35.84   17 gramicidin d
1alz LEU DLE A  14 ldl X  0.86  E 135.59 -143.10  -34.90   17 gramicidin d
1alz VAL DVA A   6 ldl X  0.86  E 109.34 -149.95  -31.16   17 gramicidin d
1alz VAL DVA A   8 ldl X  0.86  E  89.04 -127.83  -34.15   17 gramicidin d
1dsr ALA ALA    16 ldl N  1/6      85.01   -1.96  -37.04 C 17 ramoplanin
1dsr THR THR     5 ldl N  1/6   E 129.82 -148.43  -34.57 C 17 ramoplanin
1dsr THR THR    12 ldl N  1/6   E 123.23 -123.97  -33.49 C 17 ramoplanin
1bfw SER DSN   142 ldl N  1/10    163.99  -99.89  -33.79   20 retro-inverse analogue
1jy9 PRO DPR A  10 ldl NA 1/1   T  42.06   34.26  -36.89   20 de novo protein
1hcw PRO PRO     4 ldl N  1/35  S  60.84 -122.97  -35.57   23 designed peptide
1bh1 PRO PRO    14 ldl N  1/20  T  59.31  -86.64  -35.49   26 melittin
1ic9 ALA DAL A  23 ldl N  1/30  T  86.08   21.77  -35.80   29 designed beta-sheet mini protein TH10AOX
1ic9 PRO DPR A   8 ldl N  1/30  T  76.98  -90.34  -35.04   29 designed beta-sheet mini protein TH10AOX
1icl ALA DAL A  23 ldl N  1/38  T 131.93   26.34  -34.85   29 designed beta-sheet mini protein TH1OX
1icl PRO DPR A   8 ldl N  1/38  S  71.78 -153.91  -34.27   29 designed beta-sheet mini protein TH1OX
1ico ALA DAL A  23 ldl N  1/42  T 120.64  -66.87  -32.44   29 designed beta-sheet mini protein TH10BOX
1ico PRO DPR A   8 ldl N  1/42  T  86.56 -104.13  -35.75   29 designed beta-sheet mini protein TH10BOX
1goe PHE DPN A  12 ldl N  1/40  H -42.81  -51.78  -34.21   42 corticotropin releasing hormone
1an1 ASP DAS E 115 ldl X  2.03  B-168.48 -166.16  -32.36  223 trypsin
(this list contains 40 D-residues from 27 PDB entries)


(To interpret headings, see explanatory notes further down this page)

Real D-Residues in LDL Local Configurations

Code Res Rna  Rnu  Con Exptyp   SS   phi    psi    zeta     # Details

1a7z VAL DVA A   2 ldl X  0.95  B  81.25 -125.97  -33.39 C  5 actinomycin z3
1al4 LEU DLE A   4 ldl X  1.13  E 105.15 -139.39  -34.47   17 gramicidin d
1al4 LEU DLE A  10 ldl X  1.13  E 114.27 -140.38  -34.00   17 gramicidin d
1al4 LEU DLE A  12 ldl X  1.13  E 116.82 -142.19  -35.21   17 gramicidin d
1al4 LEU DLE A  14 ldl X  1.13  E 133.56 -143.17  -33.70   17 gramicidin d
1al4 LEU DLE B   4 ldl X  1.13  E  75.25 -141.64  -34.51   17 gramicidin d
1al4 LEU DLE B  10 ldl X  1.13  E 100.44 -131.14  -34.26   17 gramicidin d
1al4 LEU DLE B  12 ldl X  1.13  E  93.99 -127.74  -35.22   17 gramicidin d
1al4 LEU DLE B  14 ldl X  1.13  E 121.18 -140.35  -34.75   17 gramicidin d
1al4 VAL DVA A   6 ldl X  1.13  E 108.28 -150.93  -31.80   17 gramicidin d
1al4 VAL DVA A   8 ldl X  1.13  E  88.71 -127.27  -33.99   17 gramicidin d
1al4 VAL DVA B   6 ldl X  1.13  E 103.54 -154.97  -32.79   17 gramicidin d
1al4 VAL DVA B   8 ldl X  1.13  E 119.58 -146.69  -32.23   17 gramicidin d
1alx LEU DLE A   4 ldl X  1.20  E  70.14 -135.67  -35.28   17 gramicidin d
1alx LEU DLE A  10 ldl X  1.20  E  92.58 -134.22  -34.83   17 gramicidin d
1alx LEU DLE A  12 ldl X  1.20  E 122.39 -139.84  -34.46   17 gramicidin d
1alx LEU DLE A  14 ldl X  1.20  E 115.76 -146.22  -32.40   17 gramicidin d
1alx LEU DLE B   4 ldl X  1.20  E  65.74 -139.11  -36.62   17 gramicidin d
1alx LEU DLE B  10 ldl X  1.20  E 117.85 -129.07  -38.59   17 gramicidin d
1alx LEU DLE B  12 ldl X  1.20  E 119.84 -133.71  -34.65   17 gramicidin d
1alx LEU DLE B  14 ldl X  1.20  E 105.65 -130.36  -35.49   17 gramicidin d
1alx VAL DVA A   6 ldl X  1.20  E  94.11 -133.08  -35.40   17 gramicidin d
1alx VAL DVA A   8 ldl X  1.20  E  88.62 -128.99  -33.49   17 gramicidin d
1alx VAL DVA B   6 ldl X  1.20  E 118.28 -148.88  -29.04   17 gramicidin d
1alx VAL DVA B   8 ldl X  1.20  E 114.67 -141.47  -31.91   17 gramicidin d
1alz LEU DLE A   4 ldl X  0.86  E  92.07 -138.78  -35.18   17 gramicidin d
1alz LEU DLE A  10 ldl X  0.86  E 105.25 -143.05  -34.99   17 gramicidin d
1alz LEU DLE A  12 ldl X  0.86  E 101.10 -134.62  -35.84   17 gramicidin d
1alz LEU DLE A  14 ldl X  0.86  E 135.59 -143.10  -34.90   17 gramicidin d
1alz LEU DLE B   4 ldl X  0.86  E 103.43 -140.28  -37.11   17 gramicidin d
1alz LEU DLE B  10 ldl X  0.86  E 101.80 -129.83  -32.38   17 gramicidin d
1alz LEU DLE B  12 ldl X  0.86  E  97.33 -129.21  -35.81   17 gramicidin d
1alz LEU DLE B  14 ldl X  0.86  E 120.54 -141.16  -35.89   17 gramicidin d
1alz VAL DVA A   6 ldl X  0.86  E 109.34 -149.95  -31.16   17 gramicidin d
1alz VAL DVA A   8 ldl X  0.86  E  89.04 -127.83  -34.15   17 gramicidin d
1alz VAL DVA B   6 ldl X  0.86  E 118.89 -155.47  -33.47   17 gramicidin d
1alz VAL DVA B   8 ldl X  0.86  E 117.05 -144.17  -32.86   17 gramicidin d
1an1 ASP DAS E 115 ldl X  2.03  B-168.48 -166.16  -32.36  223 trypsin
1av2 LEU DLE A   4 ldl X  1.40  E 142.67 -144.60  -38.61   17 gramicidin a
1av2 LEU DLE A  10 ldl X  1.40  E 150.99 -137.98  -32.77   17 gramicidin a
1av2 LEU DLE A  12 ldl X  1.40  E 152.81 -124.50  -32.40   17 gramicidin a
1av2 LEU DLE A  14 ldl X  1.40  E 156.97 -124.07  -33.25   17 gramicidin a
1av2 LEU DLE B   4 ldl X  1.40  E 140.36 -137.62  -34.10   17 gramicidin a
1av2 LEU DLE B  10 ldl X  1.40  E 148.77 -142.08  -31.39   17 gramicidin a
1av2 LEU DLE B  12 ldl X  1.40  E 144.10 -149.80  -32.15   17 gramicidin a
1av2 LEU DLE B  14 ldl X  1.40  E 153.68 -139.12  -31.46   17 gramicidin a
1av2 LEU DLE C   4 ldl X  1.40  E 143.72 -127.61  -35.60   17 gramicidin a
1av2 LEU DLE C  10 ldl X  1.40  E 150.74 -133.36  -31.07   17 gramicidin a
1av2 LEU DLE C  12 ldl X  1.40  E 151.03 -123.47  -32.58   17 gramicidin a
1av2 LEU DLE C  14 ldl X  1.40  E 155.18 -126.10  -34.31   17 gramicidin a
1av2 LEU DLE D   4 ldl X  1.40  E 138.45 -146.44  -35.33   17 gramicidin a
1av2 LEU DLE D  10 ldl X  1.40  E 153.48 -148.37  -29.79   17 gramicidin a
1av2 LEU DLE D  12 ldl X  1.40  E 143.68 -138.79  -29.16   17 gramicidin a
1av2 LEU DLE D  14 ldl X  1.40  E 152.27 -141.80  -31.93   17 gramicidin a
1av2 VAL DVA A   6 ldl X  1.40  E 146.51 -129.59  -35.53   17 gramicidin a
1av2 VAL DVA A   8 ldl X  1.40  E 137.56 -134.75  -37.44   17 gramicidin a
1av2 VAL DVA B   6 ldl X  1.40  E 151.81 -134.17  -34.61   17 gramicidin a
1av2 VAL DVA B   8 ldl X  1.40  E 143.98 -136.85  -31.15   17 gramicidin a
1av2 VAL DVA C   6 ldl X  1.40  E 145.15 -127.38  -34.79   17 gramicidin a
1av2 VAL DVA C   8 ldl X  1.40  E 144.81 -135.11  -33.01   17 gramicidin a
1av2 VAL DVA D   6 ldl X  1.40  E 149.87 -129.56  -33.29   17 gramicidin a
1av2 VAL DVA D   8 ldl X  1.40  E 139.29 -129.02  -35.38   17 gramicidin a
1b0q PHE DPN     4 ldl N  1     S 164.79 -140.89  -33.82   12 dithiol melanotropic peptide
1bck ALA DAL C   8 ldl X  1.80  S  95.97 -147.84  -34.41 C 11 cyclosporin a
1bdw LEU DLE A   4 ldl X  1.70  E 146.12 -124.95  -33.89   17 gramicidin d
1bdw LEU DLE A  10 ldl X  1.70  E 150.01 -122.04  -35.95   17 gramicidin d
1bdw LEU DLE A  12 ldl X  1.70  E 158.08 -139.81  -32.90   17 gramicidin d
1bdw LEU DLE A  14 ldl X  1.70  E 149.20 -127.75  -35.95   17 gramicidin d
1bdw LEU DLE B   4 ldl X  1.70  E 144.01 -134.59  -35.03   17 gramicidin d
1bdw LEU DLE B  10 ldl X  1.70  E 153.15 -136.44  -31.57   17 gramicidin d
1bdw LEU DLE B  12 ldl X  1.70  E 157.29 -144.28  -33.62   17 gramicidin d
1bdw LEU DLE B  14 ldl X  1.70  E 144.78 -128.61  -35.83   17 gramicidin d
1bdw VAL DVA A   6 ldl X  1.70  E 149.96 -128.19  -35.03   17 gramicidin d
1bdw VAL DVA A   8 ldl X  1.70  E 150.28 -124.50  -34.73   17 gramicidin d
1bdw VAL DVA B   6 ldl X  1.70  E 150.39 -136.12  -32.74   17 gramicidin d
1bdw VAL DVA B   8 ldl X  1.70  E 153.93 -138.19  -34.83   17 gramicidin d
1bfw SER DSN   142 ldl N 10       163.99  -99.89  -33.79   20 retro-inverse analogue
1bh1 PRO PRO    14 ldl N 20     T  59.31  -86.64  -35.49   26 melittin
1c5f ALA DAL B   8 ldl X  2.47  S  87.85 -128.64  -34.60 C 11 cyclosporin a
1c5f ALA DAL D   8 ldl X  2.47  S  99.53 -130.29  -35.19 C 11 cyclosporin a
1c5f ALA DAL F   8 ldl X  2.47  S  92.26 -128.13  -35.25 C 11 cyclosporin a
1c5f ALA DAL H   8 ldl X  2.47  S  96.89 -137.85  -34.87 C 11 cyclosporin a
1c5f ALA DAL J   8 ldl X  2.47  S  88.66 -135.89  -35.20 C 11 cyclosporin a
1c5f ALA DAL L   8 ldl X  2.47  S  83.10 -134.21  -35.25 C 11 cyclosporin a
1c5f ALA DAL N   8 ldl X  2.47  T  94.33 -131.77  -34.64 C 11 cyclosporin a
1c5f ALA DAL P   8 ldl X  2.47  S 100.88 -128.26  -34.87 C 11 cyclosporin a
1csa ALA ALA     8 ldl N 18     S  99.36 -126.33  -34.98 C 11 cyclosporin a
1cwa ALA DAL C   8 ldl X  2.10  S  93.35 -143.58  -35.41 C 11 cyclosporin a
1cwb ALA DAL C   8 ldl X  2.20  T  92.97 -139.16  -35.65 C 11 cyclosporin (modified)
1cwc ALA DAL C   8 ldl X  1.86  S  86.83 -145.97  -34.96 C 11 cyclosporin (modified)
1cwf ALA DAL C   8 ldl X  1.86  S  92.24 -146.14  -34.82 C 11 cyclosporin (modified)
1cwh ALA DAL C   8 ldl X  1.86  S  87.12 -146.37  -35.24 C 11 cyclosporin (modified)
1cwi ALA DAL C   8 ldl X  1.86  S  91.94 -148.68  -35.94 C 11 cyclosporin (modified)
1cwj ALA DAL C   8 ldl X  1.80  S  94.62 -145.71  -35.97 C 11 cyclosporin (modified)
1cwk ALA DAL C   8 ldl X  1.80  S  87.10 -144.55  -35.82 C 11 cyclosporin (modified)
1cwl ALA DAL C   8 ldl X  1.80  S  93.19 -144.82  -35.68 C 11 cyclosporin (modified)
1cwm ALA DAL C   8 ldl X  2.00  S  94.42 -143.84  -35.82 C 11 cyclosporin (modified)
1cya ALA ALA     8 ldl NA 1     S 108.15 -165.32  -35.64 C 11 cyclosporin a (averaged version of 1cyb)
1cyb ALA ALA     8 ldl N 20     S  80.27 -156.48  -35.38 C 11 cyclosporin a
1dsc VAL DVA C  19 ldl NA 1     B  99.48 -137.85  -35.87   11 actinomycin d
1dsc VAL DVA C  24 ldl NA 1     B  59.66 -115.74  -34.86   11 actinomycin d
1dsd VAL DVA C  19 ldl NA 1     B 100.89 -128.12  -37.47   11 actinomycin d
1dsd VAL DVA C  24 ldl NA 1     B  65.18 -124.01  -35.30   11 actinomycin d
1dsr ALA ALA    16 ldl N  6        85.01   -1.96  -37.04 C 17 ramoplanin
1dsr THR THR     5 ldl N  6     E 129.82 -148.43  -34.57 C 17 ramoplanin
1dsr THR THR    12 ldl N  6     E 123.23 -123.97  -33.49 C 17 ramoplanin
1fja VAL DVA C   3 ldl N  5     B  82.30 -110.79  -33.70   11 actinomycin d
1fja VAL DVA C   8 ldl N  5     B  87.21 -114.76  -34.61   11 actinomycin d
1fja VAL DVA D   3 ldl N  5     B  81.88 -110.89  -33.60   11 actinomycin d
1fja VAL DVA D   8 ldl N  5     B  87.06 -114.62  -34.64   11 actinomycin d
1fjm ALA DAL M   6 ldl X  2.10     76.84    7.58  -35.38 C  7 microcystin-lr toxin
1fjm ALA DAL N   6 ldl X  2.10     80.99    5.34  -35.03 C  7 microcystin-lr toxin
1gmk LEU DLE A   4 ldl X  2.50  E 164.14 -136.88  -36.75   17 gramicidin a
1gmk LEU DLE A  10 ldl X  2.50  E 110.84 -158.02  -35.74   17 gramicidin a
1gmk LEU DLE A  12 ldl X  2.50  S 147.74  -93.47  -33.71   17 gramicidin a
1gmk LEU DLE A  14 ldl X  2.50     72.17 -120.15  -32.96   17 gramicidin a
1gmk LEU DLE B   4 ldl X  2.50  S  84.84  132.53  -30.74   17 gramicidin a
1gmk LEU DLE B  10 ldl X  2.50  E 107.71 -148.73  -36.00   17 gramicidin a
1gmk LEU DLE B  12 ldl X  2.50  E 108.44 -141.60  -35.29   17 gramicidin a
1gmk LEU DLE B  14 ldl X  2.50  E 100.81 -164.72  -38.36   17 gramicidin a
1gmk LEU DLE C   4 ldl X  2.50  E 147.94 -123.21  -34.91   17 gramicidin a
1gmk LEU DLE C  10 ldl X  2.50  E 112.40 -117.19  -35.73   17 gramicidin a
1gmk LEU DLE C  12 ldl X  2.50  E 106.11 -110.29  -30.39   17 gramicidin a
1gmk LEU DLE C  14 ldl X  2.50     55.67 -121.57  -31.99   17 gramicidin a
1gmk LEU DLE D   4 ldl X  2.50  S 108.69  158.16  -33.71   17 gramicidin a
1gmk LEU DLE D  10 ldl X  2.50  E 102.57 -151.14  -34.26   17 gramicidin a
1gmk LEU DLE D  12 ldl X  2.50  E 112.97 -149.06  -33.67   17 gramicidin a
1gmk LEU DLE D  14 ldl X  2.50  E 127.51 -138.78  -35.48   17 gramicidin a
1gmk VAL DVA A   6 ldl X  2.50  E 118.57 -155.96  -31.26   17 gramicidin a
1gmk VAL DVA A   8 ldl X  2.50  E  96.09 -136.53  -32.84   17 gramicidin a
1gmk VAL DVA B   6 ldl X  2.50  S 115.39  122.45  -35.83   17 gramicidin a
1gmk VAL DVA B   8 ldl X  2.50  E 130.36 -159.55  -32.58   17 gramicidin a
1gmk VAL DVA C   6 ldl X  2.50  E 143.35 -140.88  -32.71   17 gramicidin a
1gmk VAL DVA C   8 ldl X  2.50  E  79.47 -149.96  -31.92   17 gramicidin a
1gmk VAL DVA D   6 ldl X  2.50  S  77.22  154.15  -34.00   17 gramicidin a
1gmk VAL DVA D   8 ldl X  2.50  E  96.34 -173.07  -33.84   17 gramicidin a
1go9 PHE DPN A  12 ldl NA 1     H -44.07  -47.91  -32.86   42 corticotropin releasing hormone
1goe PHE DPN A  12 ldl N 40     H -42.81  -51.78  -34.21   42 corticotropin releasing hormone
1grm LEU LEU A   4 ldl N  5     E 125.52 -124.26  -32.05   17 gramicidin a
1grm LEU LEU A  10 ldl N  5     E 143.77 -105.76  -32.07   17 gramicidin a
1grm LEU LEU A  12 ldl N  5     E 110.53  -94.80  -32.08   17 gramicidin a
1grm LEU LEU A  14 ldl N  5     E 112.10 -102.93  -32.08   17 gramicidin a
1grm LEU LEU B   4 ldl N  5     E 125.58 -124.24  -32.09   17 gramicidin a
1grm LEU LEU B  10 ldl N  5     E 143.79 -105.75  -32.08   17 gramicidin a
1grm LEU LEU B  12 ldl N  5     E 110.52  -94.79  -32.06   17 gramicidin a
1grm LEU LEU B  14 ldl N  5     E 112.15 -102.94  -32.10   17 gramicidin a
1grm VAL VAL A   6 ldl N  5     E 138.87 -116.14  -32.89   17 gramicidin a
1grm VAL VAL A   8 ldl N  5     E 129.52 -125.43  -32.85   17 gramicidin a
1grm VAL VAL B   6 ldl N  5     E 138.82 -116.16  -32.89   17 gramicidin a
1grm VAL VAL B   8 ldl N  5     E 129.49 -125.43  -32.88   17 gramicidin a
1hcw PRO PRO     4 ldl N 35     S  60.84 -122.97  -35.57   23 designed peptide
1ic9 ALA DAL A  23 ldl N 30     T  86.08   21.77  -35.80   29 designed beta-sheet mini protein TH10AOX
1ic9 PRO DPR A   8 ldl N 30     T  76.98  -90.34  -35.04   29 designed beta-sheet mini protein TH10AOX
1icl ALA DAL A  23 ldl N 38     T 131.93   26.34  -34.85   29 designed beta-sheet mini protein TH1OX
1icl PRO DPR A   8 ldl N 38     S  71.78 -153.91  -34.27   29 designed beta-sheet mini protein TH1OX
1ico ALA DAL A  23 ldl N 42     T 120.64  -66.87  -32.44   29 designed beta-sheet mini protein TH10BOX
1ico PRO DPR A   8 ldl N 42     T  86.56 -104.13  -35.75   29 designed beta-sheet mini protein TH10BOX
1ikf ALA DAL C 508 ldl X  2.50  S 100.77 -127.83  -35.16 C 11 cyclosporin
1jno LEU DLE A   4 ldl N  1     E 146.59 -111.83  -32.79   17 gramicidin a
1jno LEU DLE A  10 ldl N  1     E 103.02  -86.71  -33.58   17 gramicidin a
1jno LEU DLE A  12 ldl N  1     E  97.79  -84.08  -33.49   17 gramicidin a
1jno LEU DLE A  14 ldl N  1     E 113.28  -99.54  -34.18   17 gramicidin a
1jno LEU DLE B   4 ldl N  1     E 146.64 -111.81  -32.80   17 gramicidin a
1jno LEU DLE B  10 ldl N  1     E 103.09  -86.73  -33.55   17 gramicidin a
1jno LEU DLE B  12 ldl N  1     E  97.83  -84.14  -33.48   17 gramicidin a
1jno LEU DLE B  14 ldl N  1     E 113.29  -99.53  -34.15   17 gramicidin a
1jno VAL DVA A   6 ldl N  1     E 137.07 -132.95  -33.45   17 gramicidin a
1jno VAL DVA A   8 ldl N  1     E 141.38 -106.52  -32.89   17 gramicidin a
1jno VAL DVA B   6 ldl N  1     E 137.10 -133.04  -33.50   17 gramicidin a
1jno VAL DVA B   8 ldl N  1     E 141.38 -106.48  -32.87   17 gramicidin a
1jo3 LEU DLE A   4 ldl N  1     E  99.75  -91.19  -33.79   17 gramicidin b
1jo3 LEU DLE A  10 ldl N  1     E 112.26  -99.60  -34.25   17 gramicidin b
1jo3 LEU DLE A  12 ldl N  1     E 103.55  -90.80  -33.76   17 gramicidin b
1jo3 LEU DLE A  14 ldl N  1     E 105.71  -99.42  -34.18   17 gramicidin b
1jo3 LEU DLE B   4 ldl N  1     E  99.76  -91.16  -33.72   17 gramicidin b
1jo3 LEU DLE B  10 ldl N  1     E 112.27  -99.58  -34.24   17 gramicidin b
1jo3 LEU DLE B  12 ldl N  1     E 103.62  -90.77  -33.74   17 gramicidin b
1jo3 LEU DLE B  14 ldl N  1     E 105.69  -99.40  -34.12   17 gramicidin b
1jo3 VAL DVA A   6 ldl N  1     E 140.72 -134.35  -33.60   17 gramicidin b
1jo3 VAL DVA A   8 ldl N  1     E 140.99 -115.40  -32.94   17 gramicidin b
1jo3 VAL DVA B   6 ldl N  1     E 140.69 -134.22  -33.54   17 gramicidin b
1jo3 VAL DVA B   8 ldl N  1     E 141.07 -115.38  -33.01   17 gramicidin b
1jo4 LEU DLE A   4 ldl N  1     E  99.39  -95.92  -33.59   17 gramicidin c
1jo4 LEU DLE A  10 ldl N  1     E 132.69  -85.81  -32.80   17 gramicidin c
1jo4 LEU DLE A  12 ldl N  1     E  92.36  -94.55  -33.79   17 gramicidin c
1jo4 LEU DLE A  14 ldl N  1     E 121.61  -99.31  -30.14   17 gramicidin c
1jo4 LEU DLE B   4 ldl N  1     E  99.42  -95.85  -33.55   17 gramicidin c
1jo4 LEU DLE B  10 ldl N  1     E 132.68  -85.82  -32.80   17 gramicidin c
1jo4 LEU DLE B  12 ldl N  1     E  92.34  -94.56  -33.75   17 gramicidin c
1jo4 LEU DLE B  14 ldl N  1     E 121.51  -99.25  -30.12   17 gramicidin c
1jo4 VAL DVA A   6 ldl N  1     E 133.44 -120.35  -33.78   17 gramicidin c
1jo4 VAL DVA A   8 ldl N  1     E 142.07 -139.21  -32.99   17 gramicidin c
1jo4 VAL DVA B   6 ldl N  1     E 133.38 -120.38  -33.73   17 gramicidin c
1jo4 VAL DVA B   8 ldl N  1     E 142.06 -139.10  -32.95   17 gramicidin c
1jy9 PRO DPR A  10 ldl NA 1     T  42.06   34.26  -36.89   20 de novo protein
1l1v VAL DVA B  19 ldl N  6     B  84.61 -110.87  -33.89   11 actinomycin d
1l1v VAL DVA B  24 ldl N  6     B  81.59 -114.28  -33.93   11 actinomycin d
1mag LEU DLE A   4 ldl N  1     E 120.05 -132.24  -32.17   17 gramicidin a
1mag LEU DLE A  10 ldl N  1     E 128.22 -126.91  -23.02   17 gramicidin a
1mag LEU DLE A  12 ldl N  1     E 114.76 -118.93  -39.11   17 gramicidin a
1mag LEU DLE A  14 ldl N  1     E 111.42 -115.96  -37.71   17 gramicidin a
1mag LEU DLE B   4 ldl N  1     E 120.05 -132.24  -32.17   17 gramicidin a
1mag LEU DLE B  10 ldl N  1     E 128.22 -126.91  -23.02   17 gramicidin a
1mag LEU DLE B  12 ldl N  1     E 114.76 -118.93  -39.11   17 gramicidin a
1mag LEU DLE B  14 ldl N  1     E 111.42 -115.96  -37.71   17 gramicidin a
1mag VAL DVA A   6 ldl N  1     E 147.66 -117.19  -31.83   17 gramicidin a
1mag VAL DVA A   8 ldl N  1     E 151.56 -120.82  -33.48   17 gramicidin a
1mag VAL DVA B   6 ldl N  1     E 147.66 -117.19  -31.83   17 gramicidin a
1mag VAL DVA B   8 ldl N  1     E 151.56 -120.82  -33.48   17 gramicidin a
1mcb PHE PHE P   2 ldl X  2.70     60.00 -105.14  -32.20    5 ace-gln-d-phe-his-d-pro-oh
1mcc PHE PHE P   2 ldl X  2.70     75.99  -31.40  -31.54    5 ace-gln-d-phe-his-d-pro-nh2
1mce PHE PHE P   2 ldl X  2.70     61.93  -79.13  -31.82    6 ace-gln-d-phe-his-d-pro-bal
1mce PRO PRO P   4 ldl X  2.70    115.90 -163.94  -37.71    6 ace-gln-d-phe-his-d-pro-bal
1mcf PHE PHE P   2 ldl X  2.70    -85.60   52.58  -25.62    7 ace-gln-d-phe-his-d-pro-bal-bal
1mcf PRO PRO P   4 ldl X  2.70  T  43.10  -18.59  -34.56    7 ace-gln-d-phe-his-d-pro-bal-bal
1mch PHE PHE P   2 ldl X  2.70     23.62 -153.57  -36.84    7 ace-gln-d-phe-his-d-pro-bal-bal
1mch PRO PRO P   4 ldl X  2.70  S  82.15 -133.70  -34.34    7 ace-gln-d-phe-his-d-pro-bal-bal
1mcs PHE PHE P   2 ldl X  2.70    154.00  -21.28  -33.85    5 ace-gln-d-phe-his-d-pro-oh
1mic LEU DLE A   4 ldl N 20     E 109.11 -115.71  -36.26   17 gramicidin a
1mic LEU DLE A  10 ldl N 20     E 101.40 -121.95  -33.90   17 gramicidin a
1mic LEU DLE A  12 ldl N 20     E 123.03 -129.73  -35.44   17 gramicidin a
1mic LEU DLE A  14 ldl N 20     e  60.31 -103.75  -35.52   17 gramicidin a
1mic LEU DLE B   4 ldl N 20     E 111.78 -117.46  -36.77   17 gramicidin a
1mic LEU DLE B  10 ldl N 20     E 124.62 -119.80  -34.02   17 gramicidin a
1mic LEU DLE B  12 ldl N 20     E 111.25 -131.41  -35.32   17 gramicidin a
1mic LEU DLE B  14 ldl N 20     e  59.82 -113.24  -35.59   17 gramicidin a
1mic VAL DVA A   6 ldl N 20     E 112.91  169.55  -34.66   17 gramicidin a
1mic VAL DVA A   8 ldl N 20     E 136.60 -107.94  -38.64   17 gramicidin a
1mic VAL DVA B   6 ldl N 20     E 130.95 -127.14  -35.17   17 gramicidin a
1mic VAL DVA B   8 ldl N 20     E 135.81 -158.03  -37.93   17 gramicidin a
1mik ALA DAL B   8 ldl X  1.76  S  86.88 -135.30  -34.79 C 11 cyclosporin (modified)
1qfb TRP DTR A   4 ldl N 20     S 123.94  -29.77  -36.67    9 contryphan-r
1qng ALA DAL D 208 ldl X  2.10  S  98.28 -145.88  -34.84 C 11 cyclosporin a
1qnh ALA DAL C 208 ldl X  2.10  S  88.53 -141.50  -34.86 C 11 cyclosporin a
1qnh ALA DAL D 208 ldl X  2.10  S  79.04 -139.75  -34.76 C 11 cyclosporin a
1soc TRP DTR     4 ldl NA 1     T  66.55 -127.18  -33.14    8 sandostatin (beta structure)
1tmb PHE PHE T  51 ldl X  2.30    158.99 -118.82  -30.48 C  7 cyclotheonamide
1vbs ALA DAL B   3 ldl X  2.00  B  84.51 -121.59  -34.08    5 ala-d-ala-pro-phe-nit
2rma ALA ALA B   8 ldl X  2.10  S 107.95 -137.37  -36.18 C 11 cyclosporin a
2rma ALA ALA D   8 ldl X  2.10  T 108.05 -139.85  -36.33 C 11 cyclosporin a
2rma ALA ALA F   8 ldl X  2.10  S 100.04 -141.44  -35.73 C 11 cyclosporin a
2rma ALA ALA H   8 ldl X  2.10  S 108.15 -144.94  -35.51 C 11 cyclosporin a
2rma ALA ALA J   8 ldl X  2.10  S  90.82 -140.37  -35.69 C 11 cyclosporin a
2rma ALA ALA L   8 ldl X  2.10  S 106.51 -136.56  -36.00 C 11 cyclosporin a
2rma ALA ALA N   8 ldl X  2.10  T 102.27 -143.32  -35.68 C 11 cyclosporin a
2rma ALA ALA P   8 ldl X  2.10  T  96.09 -141.20  -35.90 C 11 cyclosporin a
2rma ALA ALA R   8 ldl X  2.10  S 104.75 -139.41  -35.72 C 11 cyclosporin a
2rma ALA ALA T   8 ldl X  2.10  S 108.51 -144.48  -35.65 C 11 cyclosporin a
2rmb ALA ALA B   8 ldl X  2.10  S 118.85 -139.62  -35.86 C 11 cyclosporin a
2rmb ALA ALA D   8 ldl X  2.10  S 116.25 -139.87  -36.12 C 11 cyclosporin a
2rmb ALA ALA F   8 ldl X  2.10  S 116.32 -142.15  -35.99 C 11 cyclosporin a
2rmb ALA ALA H   8 ldl X  2.10  S 114.85 -137.34  -35.74 C 11 cyclosporin a
2rmb ALA ALA J   8 ldl X  2.10  S  98.83 -141.49  -35.64 C 11 cyclosporin a
2rmb ALA ALA L   8 ldl X  2.10  S 103.81 -142.14  -35.80 C 11 cyclosporin a
2rmb ALA ALA N   8 ldl X  2.10  S 111.41 -143.12  -36.13 C 11 cyclosporin a
2rmb ALA ALA P   8 ldl X  2.10  S 106.72 -138.89  -36.29 C 11 cyclosporin a
2rmb ALA ALA R   8 ldl X  2.10  S 121.85 -139.28  -36.02 C 11 cyclosporin a
2rmb ALA ALA T   8 ldl X  2.10  S 114.73 -141.86  -35.84 C 11 cyclosporin a
2rmc ALA ALA B   8 ldl X  1.64  S  86.93 -136.27  -35.74 C 11 cyclosporin a
2rmc ALA ALA D   8 ldl X  1.64  S  93.77 -130.12  -35.49 C 11 cyclosporin a
2rmc ALA ALA F   8 ldl X  1.64  S  92.11 -128.31  -35.25 C 11 cyclosporin a
2rmc ALA ALA H   8 ldl X  1.64  S  87.20 -132.85  -35.53 C 11 cyclosporin a
2soc TRP DTR     4 ldl N  2     G  72.30 -128.14  -34.11    8 sandostatin (helical structure)
3cys ALA ALA B 208 ldl N 22     S 129.44 -162.40  -33.66 C 11 cyclosporin a
(this list contains 264 D-residues from 64 PDB entries)


(To interpret headings, see explanatory notes further down this page)

All Real D-Residues (Excludes Unnatural and Modified Amino Acids)

Code Res Rna  Rnu  Con Exptyp     # Details

148l ALA ALA S 170 ld_ X  1.90    6 nag-amu-ala-d-glu-api-d-ala
148l GLU GLU S 167 ld_ X  1.90    6 nag-amu-ala-d-glu-api-d-ala
173d PRO DPR A  20 ddl X  3.00    6 actinomycin d pxy-d-thr-d-val-d-pro-sar-mva
173d PRO DPR B  26 ddl X  3.00    6 actinomycin d pxy-d-thr-d-val-d-pro-sar-mva
173d THR DTH A  18 _dd X  3.00    6 actinomycin d pxy-d-thr-d-val-d-pro-sar-mva
173d THR DTH B  24 _dd X  3.00    6 actinomycin d pxy-d-thr-d-val-d-pro-sar-mva
173d VAL DVA A  19 ddd X  3.00    6 actinomycin d pxy-d-thr-d-val-d-pro-sar-mva
173d VAL DVA B  25 ddd X  3.00    6 actinomycin d pxy-d-thr-d-val-d-pro-sar-mva
185d SER SER A   2 _dl N  5       5 triostin A qui-d-ser-ala-cys-val
185d SER SER B   7 _dl N  5       5 triostin A qui-d-ser-ala-cys-val
193d SER SER C   1 _dl N  4       5 hqu-d-ser-ala-cys(ch3)-cpc
193d SER SER D   1 _dl N  4       5 hqu-d-ser-ala-cys(ch3)-cpc
1a0h PHE DPN C   1 _dl X  3.20    3 d-phe-pro-arg
1a0h PHE DPN F   1 _dl X  3.20    3 d-phe-pro-arg
1a7y PRO DPR A   3 ddl X  0.94 C 11 actinomycin d
1a7y PRO DPR A   8 ddl X  0.94 C 11 actinomycin d
1a7y PRO DPR B   3 ddl X  0.94 C 11 actinomycin d
1a7y PRO DPR B   8 ddl X  0.94 C 11 actinomycin d
1a7y PRO DPR C   3 ddl X  0.94 C 11 actinomycin d
1a7y PRO DPR C   8 ddl X  0.94 C 11 actinomycin d
1a7y THR DTH A   1 _dd X  0.94 C 11 actinomycin d
1a7y THR DTH A   6 _dd X  0.94 C 11 actinomycin d
1a7y THR DTH B   1 _dd X  0.94 C 11 actinomycin d
1a7y THR DTH B   6 _dd X  0.94 C 11 actinomycin d
1a7y THR DTH C   1 _dd X  0.94 C 11 actinomycin d
1a7y THR DTH C   6 _dd X  0.94 C 11 actinomycin d
1a7y VAL DVA A   2 ddd X  0.94 C 11 actinomycin d
1a7y VAL DVA A   7 ddd X  0.94 C 11 actinomycin d
1a7y VAL DVA B   2 ddd X  0.94 C 11 actinomycin d
1a7y VAL DVA B   7 ddd X  0.94 C 11 actinomycin d
1a7y VAL DVA C   2 ddd X  0.94 C 11 actinomycin d
1a7y VAL DVA C   7 ddd X  0.94 C 11 actinomycin d
1a7z THR DTH A   6 _dd X  0.95 C  5 actinomycin z3
1a7z VAL DVA A   2 ldl X  0.95 C  5 actinomycin z3
1a7z VAL DVA A   7 ddl X  0.95 C  5 actinomycin z3
1abi PHE PHE I   1 _dl X  2.30   20 hirulog 3
1abj PHE PHE I   1 _dl X  2.40    3 d-phe-pro-arg-CH2
1afq LEU DLE D 301 _dl X  1.80    3 d-leu-phe-fba
1afq LEU DLE E 304 _dl X  1.80    3 d-leu-phe-fba
1aj1 ALA DAL     1 _dl N 15      19 actagardine
1al4 LEU DLE A   4 ldl X  1.13   17 gramicidin d
1al4 LEU DLE A  10 ldl X  1.13   17 gramicidin d
1al4 LEU DLE A  12 ldl X  1.13   17 gramicidin d
1al4 LEU DLE A  14 ldl X  1.13   17 gramicidin d
1al4 LEU DLE B   4 ldl X  1.13   17 gramicidin d
1al4 LEU DLE B  10 ldl X  1.13   17 gramicidin d
1al4 LEU DLE B  12 ldl X  1.13   17 gramicidin d
1al4 LEU DLE B  14 ldl X  1.13   17 gramicidin d
1al4 VAL DVA A   6 ldl X  1.13   17 gramicidin d
1al4 VAL DVA A   8 ldl X  1.13   17 gramicidin d
1al4 VAL DVA B   6 ldl X  1.13   17 gramicidin d
1al4 VAL DVA B   8 ldl X  1.13   17 gramicidin d
1alx LEU DLE A   4 ldl X  1.20   17 gramicidin d
1alx LEU DLE A  10 ldl X  1.20   17 gramicidin d
1alx LEU DLE A  12 ldl X  1.20   17 gramicidin d
1alx LEU DLE A  14 ldl X  1.20   17 gramicidin d
1alx LEU DLE B   4 ldl X  1.20   17 gramicidin d
1alx LEU DLE B  10 ldl X  1.20   17 gramicidin d
1alx LEU DLE B  12 ldl X  1.20   17 gramicidin d
1alx LEU DLE B  14 ldl X  1.20   17 gramicidin d
1alx VAL DVA A   6 ldl X  1.20   17 gramicidin d
1alx VAL DVA A   8 ldl X  1.20   17 gramicidin d
1alx VAL DVA B   6 ldl X  1.20   17 gramicidin d
1alx VAL DVA B   8 ldl X  1.20   17 gramicidin d
1alz LEU DLE A   4 ldl X  0.86   17 gramicidin d
1alz LEU DLE A  10 ldl X  0.86   17 gramicidin d
1alz LEU DLE A  12 ldl X  0.86   17 gramicidin d
1alz LEU DLE A  14 ldl X  0.86   17 gramicidin d
1alz LEU DLE B   4 ldl X  0.86   17 gramicidin d
1alz LEU DLE B  10 ldl X  0.86   17 gramicidin d
1alz LEU DLE B  12 ldl X  0.86   17 gramicidin d
1alz LEU DLE B  14 ldl X  0.86   17 gramicidin d
1alz VAL DVA A   6 ldl X  0.86   17 gramicidin d
1alz VAL DVA A   8 ldl X  0.86   17 gramicidin d
1alz VAL DVA B   6 ldl X  0.86   17 gramicidin d
1alz VAL DVA B   8 ldl X  0.86   17 gramicidin d
1an1 ASP DAS E 115 ldl X  2.03  223 trypsin
1aut PHE DPN P   1 _dl X  2.80    3 d-phe-pro-mai
1av2 LEU DLE A   4 ldl X  1.40   17 gramicidin a
1av2 LEU DLE A  10 ldl X  1.40   17 gramicidin a
1av2 LEU DLE A  12 ldl X  1.40   17 gramicidin a
1av2 LEU DLE A  14 ldl X  1.40   17 gramicidin a
1av2 LEU DLE B   4 ldl X  1.40   17 gramicidin a
1av2 LEU DLE B  10 ldl X  1.40   17 gramicidin a
1av2 LEU DLE B  12 ldl X  1.40   17 gramicidin a
1av2 LEU DLE B  14 ldl X  1.40   17 gramicidin a
1av2 LEU DLE C   4 ldl X  1.40   17 gramicidin a
1av2 LEU DLE C  10 ldl X  1.40   17 gramicidin a
1av2 LEU DLE C  12 ldl X  1.40   17 gramicidin a
1av2 LEU DLE C  14 ldl X  1.40   17 gramicidin a
1av2 LEU DLE D   4 ldl X  1.40   17 gramicidin a
1av2 LEU DLE D  10 ldl X  1.40   17 gramicidin a
1av2 LEU DLE D  12 ldl X  1.40   17 gramicidin a
1av2 LEU DLE D  14 ldl X  1.40   17 gramicidin a
1av2 VAL DVA A   6 ldl X  1.40   17 gramicidin a
1av2 VAL DVA A   8 ldl X  1.40   17 gramicidin a
1av2 VAL DVA B   6 ldl X  1.40   17 gramicidin a
1av2 VAL DVA B   8 ldl X  1.40   17 gramicidin a
1av2 VAL DVA C   6 ldl X  1.40   17 gramicidin a
1av2 VAL DVA C   8 ldl X  1.40   17 gramicidin a
1av2 VAL DVA D   6 ldl X  1.40   17 gramicidin a
1av2 VAL DVA D   8 ldl X  1.40   17 gramicidin a
1axd GLU DGL C   1 _dl X  2.50    3 d-glu-cys-lac
1b0q PHE DPN     4 ldl N  1      12 cyclised dithiol melanotropic peptide
1b74 GLN DGN   538 _d_ X  2.30    1 d-gln
1b7x PHE PHE A 301 _dl X  2.10    3 d-phe-pro-arg-chloromethylketone
1bck ALA DAL C   8 ldl X  1.80 C 11 cyclosporin a
1bdk ARA ARG     1 _dl N  1      10 bradykinin antagonist
1bdw LEU DLE A   4 ldl X  1.70   17 gramicidin d
1bdw LEU DLE A  10 ldl X  1.70   17 gramicidin d
1bdw LEU DLE A  12 ldl X  1.70   17 gramicidin d
1bdw LEU DLE A  14 ldl X  1.70   17 gramicidin d
1bdw LEU DLE B   4 ldl X  1.70   17 gramicidin d
1bdw LEU DLE B  10 ldl X  1.70   17 gramicidin d
1bdw LEU DLE B  12 ldl X  1.70   17 gramicidin d
1bdw LEU DLE B  14 ldl X  1.70   17 gramicidin d
1bdw VAL DVA A   6 ldl X  1.70   17 gramicidin d
1bdw VAL DVA A   8 ldl X  1.70   17 gramicidin d
1bdw VAL DVA B   6 ldl X  1.70   17 gramicidin d
1bdw VAL DVA B   8 ldl X  1.70   17 gramicidin d
1bfw ALA DAL   152 ddd N 10      20 retro-inverse analogue
1bfw ALA DAL   156 ddd N 10      20 retro-inverse analogue
1bfw ARG DAR   145 ldd N 10      20 retro-inverse analogue
1bfw ARG DAR   154 ddd N 10      20 retro-inverse analogue
1bfw ARG DAR   157 ddd N 10      20 retro-inverse analogue
1bfw ASP DSP   147 ddl N 10      20 retro-inverse analogue
1bfw GLN DGN   158 ldd N 10      20 retro-inverse analogue
1bfw LEU DLE   151 ddd N 10      20 retro-inverse analogue
1bfw PHE DPN   148 ldd N 10      20 retro-inverse analogue
1bfw PRO DPR   153 ddd N 10      20 retro-inverse analogue
1bfw SER DSN   142 ldl N 10      20 retro-inverse analogue
1bfw SER DSN   150 ddl N 10      20 retro-inverse analogue
1bfw VAL DVA   144 ddl N 10      20 retro-inverse analogue
1bfw VAL DVA   155 ddd N 10      20 retro-inverse analogue
1bg0 ARG DAR   403 _d_ X  1.86    1 d-arg
1bgv GLU DGL   501 _d_ X  1.90    1 d-glu
1bh1 PRO PRO    14 ldl N 20      26 melittin
1bzv ALA DAL B  26 ld_ N  1      26 insulin (modified)
1c0p ALA DAL  1364 _d_ X  1.20    1 d-ala-peroxide
1c4b ALA DAL A   5 ddd N 15      13 beta hairpin mimic
1c4b ASP DAS A   8 ldd N 15      13 beta hairpin mimic
1c4b CYS DCY A  13 dd_ N 15      13 beta hairpin mimic
1c4b GLU DGL A   6 ddl N 15      13 beta hairpin mimic
1c4b ILE DIL A  12 ddd N 15      13 beta hairpin mimic
1c4b LEU DLE A   4 ddd N 15      13 beta hairpin mimic
1c4b LYS DLY A   3 ddd N 15      13 beta hairpin mimic
1c4b LYS DLY A   9 ddd N 15      13 beta hairpin mimic
1c4b TYR DTY A   2 ldd N 15      13 beta hairpin mimic
1c4b TYR DTY A  10 ddd N 15      13 beta hairpin mimic
1c4b TYR DTY A  11 ddd N 15      13 beta hairpin mimic
1c5f ALA DAL B   8 ldl X  2.47 C 11 cyclosporin a
1c5f ALA DAL D   8 ldl X  2.47 C 11 cyclosporin a
1c5f ALA DAL F   8 ldl X  2.47 C 11 cyclosporin a
1c5f ALA DAL H   8 ldl X  2.47 C 11 cyclosporin a
1c5f ALA DAL J   8 ldl X  2.47 C 11 cyclosporin a
1c5f ALA DAL L   8 ldl X  2.47 C 11 cyclosporin a
1c5f ALA DAL N   8 ldl X  2.47 C 11 cyclosporin a
1c5f ALA DAL P   8 ldl X  2.47 C 11 cyclosporin a
1cfa ARG DAR B  75 ld_ N 20       4 cys-leu-gly-d-arg
1csa ALA ALA     8 ldl N 18    C 11 cyclosporin a
1cvq ARG DAR A   5 ldd N  7       9 retro inverse peptide
1cvq GLU DGL A   3 ddl N  7       9 retro inverse peptide
1cvq ILE DIL A   6 ddl N  7       9 retro inverse peptide 
1cvr PHE DPN I 436 _dl X  2.00    3 d-phe-phe-arg-chloromethylketone
1cw8 ARG DAR A   2 _dd N  6       9 retro inverse peptide
1cw8 ARG DAR A   5 ldd N  6       9 retro inverse peptide
1cw8 GLU DGL A   3 ddl N  6       9 retro inverse peptide
1cw8 ILE DIL A   6 ddl N  6       9 retro inverse peptide
1cwa ALA DAL C   8 ldl X  2.10 C 11 cyclosporin a
1cwb ALA DAL C   8 ldl X  2.20 C 11 cyclosporin (modified)
1cwc ALA DAL C   8 ldl X  1.86 C 11 cyclosporin (modified)
1cwf ALA DAL C   8 ldl X  1.86 C 11 cyclosporin (modified)
1cwh ALA DAL C   8 ldl X  1.86 C 11 cyclosporin (modified)
1cwi ALA DAL C   8 ldl X  1.86 C 11 cyclosporin (modified)
1cwj ALA DAL C   8 ldl X  1.80 C 11 cyclosporin (modified)
1cwk ALA DAL C   8 ldl X  1.80 C 11 cyclosporin (modified)
1cwl ALA DAL C   8 ldl X  1.80 C 11 cyclosporin (modified)
1cwm ALA DAL C   8 ldl X  2.00 C 11 cyclosporin (modified)
1cwz ARG DAR A   2 _dd N  7       9 retro inverse peptide
1cwz ARG DAR A   5 ldd N  7       9 retro inverse peptide
1cwz GLU DGL A   3 ddl N  7       9 retro inverse peptide
1cwz ILE DIL A   6 ddl N  7       9 retro inverse peptide
1cya ALA ALA     8 ldl NA 1    C 11 cyclosporin a (averaged version of 1cyb)
1cyb ALA ALA     8 ldl N 20    C 11 cyclosporin a
1czq ALA DAL D   2 ldd X  1.50   17 HIV-1 entry inhibitor
1czq ALA DAL D   5 ddd X  1.50   17 HIV-1 entry inhibitor
1czq ALA DAL D  11 ldd X  1.50   17 HIV-1 entry inhibitor
1czq ALA DAL D  15 ddd X  1.50   17 HIV-1 entry inhibitor
1czq ALA DAL D  16 dd_ X  1.50   17 HIV-1 entry inhibitor
1czq ARG DAR D   6 ddd X  1.50   17 HIV-1 entry inhibitor
1czq ARG DAR D   8 ddd X  1.50   17 HIV-1 entry inhibitor
1czq CYS DCY D   3 ddd X  1.50   17 HIV-1 entry inhibitor
1czq CYS DCY D  14 ddd X  1.50   17 HIV-1 entry inhibitor
1czq GLU DGL D   4 ddd X  1.50   17 HIV-1 entry inhibitor
1czq GLU DGL D   9 ddd X  1.50   17 HIV-1 entry inhibitor
1czq HIS DHI D   7 ddd X  1.50   17 HIV-1 entry inhibitor
1czq LEU DLE D  13 ddd X  1.50   17 HIV-1 entry inhibitor
1czq TRP DTR D  10 ddd X  1.50   17 HIV-1 entry inhibitor
1czq TRP DTR D  12 ddd X  1.50   17 HIV-1 entry inhibitor
1d0k GLU DGL   404 ld_ X  2.02    4 nag-amu-ala-dgl
1dan PHE DPN C   1 _dl X  2.00    3 d-phe-phe-arg-ch2
1ddo TRP DTR   342 _d_ X  3.10    1 d-trp
1ddo TRP DTR   343 _d_ X  3.10    1 d-trp
1doj PHE DPN I 401 _dl X  1.70    3 ch3-d-phe-pro-ar2 (RWJ-51438)
1dsc VAL DVA C  19 ldl NA 1      11 actinomycin d
1dsc VAL DVA C  24 ldl NA 1      11 actinomycin d
1dsd VAL DVA C  19 ldl NA 1      11 actinomycin d
1dsd VAL DVA C  24 ldl NA 1      11 actinomycin d
1dsr ALA ALA    16 ldl N  6    C 17 ramoplanin
1dsr THR THR     5 ldl N  6    C 17 ramoplanin
1dsr THR THR    12 ldl N  6    C 17 ramoplanin
1dva PHE DPN C   1 _dl X  3.00    1 d-phe
1dva PHE DPN D   1 _dl X  3.00    1 d-phe
1dwe PHE PHE P   1 _dl X  3.00    3 d-phe-pro-arg-CH2
1er8 HIS HIS I   1 _dl X  2.00    8 d-his-pro-phe-his-leu-leu-val-tyr (h77)
1eva ALA DAL     1 _dl N 46       7 cyclo -d-ala-leu-acb-arg-add-ilg-dam-
1evb ALA DAL     1 _dl NA 1       7 cyclo -d-ala-leu-acb-arg-add-ilg-dam-
1f57 CYS DCY   308 _d_ X  1.75    1 d-cys
1fja VAL DVA C   3 ldl N  5      11 actinomycin d
1fja VAL DVA C   8 ldl N  5      11 actinomycin d
1fja VAL DVA D   3 ldl N  5      11 actinomycin d
1fja VAL DVA D   8 ldl N  5      11 actinomycin d
1fjm ALA DAL M   6 ldl X  2.10 C  7 microcystin-lr toxin
1fjm ALA DAL N   6 ldl X  2.10 C  7 microcystin-lr toxin
1fvm ALA DAL A  12 ldd X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL A  13 dd_ X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL B  13 ldd X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL B  14 dd_ X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL C  14 ldd X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL C  15 dd_ X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL D  15 ldd X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL D  16 dd_ X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL E  16 ldd X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL E  17 dd_ X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL F  17 ldd X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fvm ALA DAL F  18 dd_ X  1.80    3 di-acetyl-lys-d-ala-d-ala
1fxy PHE DPN I   1 _dl X  2.15    3 d-phe-pro-arg-ch2 
1gac ALA DAL A   4 ldd N 80       5 ala-ilg-lys-d-ala-d-ala
1gac ALA DAL A   5 dd_ N 80       5 ala-ilg-lys-d-ala-d-ala
1gac ALA DAL B   4 ldd N 80       5 ala-ilg-lys-d-ala-d-ala
1gac ALA DAL B   5 dd_ N 80       5 ala-ilg-lys-d-ala-d-ala
1ghb TRP TRP I 601 _d_ X  2.00    1 ace-d-trp
1gmk LEU DLE A   4 ldl X  2.50   17 gramicidin a
1gmk LEU DLE A  10 ldl X  2.50   17 gramicidin a
1gmk LEU DLE A  12 ldl X  2.50   17 gramicidin a
1gmk LEU DLE A  14 ldl X  2.50   17 gramicidin a
1gmk LEU DLE B   4 ldl X  2.50   17 gramicidin a
1gmk LEU DLE B  10 ldl X  2.50   17 gramicidin a
1gmk LEU DLE B  12 ldl X  2.50   17 gramicidin a
1gmk LEU DLE B  14 ldl X  2.50   17 gramicidin a
1gmk LEU DLE C   4 ldl X  2.50   17 gramicidin a
1gmk LEU DLE C  10 ldl X  2.50   17 gramicidin a
1gmk LEU DLE C  12 ldl X  2.50   17 gramicidin a
1gmk LEU DLE C  14 ldl X  2.50   17 gramicidin a
1gmk LEU DLE D   4 ldl X  2.50   17 gramicidin a
1gmk LEU DLE D  10 ldl X  2.50   17 gramicidin a
1gmk LEU DLE D  12 ldl X  2.50   17 gramicidin a
1gmk LEU DLE D  14 ldl X  2.50   17 gramicidin a
1gmk VAL DVA A   6 ldl X  2.50   17 gramicidin a
1gmk VAL DVA A   8 ldl X  2.50   17 gramicidin a
1gmk VAL DVA B   6 ldl X  2.50   17 gramicidin a
1gmk VAL DVA B   8 ldl X  2.50   17 gramicidin a
1gmk VAL DVA C   6 ldl X  2.50   17 gramicidin a
1gmk VAL DVA C   8 ldl X  2.50   17 gramicidin a
1gmk VAL DVA D   6 ldl X  2.50   17 gramicidin a
1gmk VAL DVA D   8 ldl X  2.50   17 gramicidin a
1go9 PHE DPN A  12 ldl NA 1      42 corticotropin releasing hormone
1goe PHE DPN A  12 ldl N 40      42 corticotropin releasing hormone
1grm LEU LEU A   4 ldl N  5      17 gramicidin a
1grm LEU LEU A  10 ldl N  5      17 gramicidin a
1grm LEU LEU A  12 ldl N  5      17 gramicidin a
1grm LEU LEU A  14 ldl N  5      17 gramicidin a
1grm LEU LEU B   4 ldl N  5      17 gramicidin a
1grm LEU LEU B  10 ldl N  5      17 gramicidin a
1grm LEU LEU B  12 ldl N  5      17 gramicidin a
1grm LEU LEU B  14 ldl N  5      17 gramicidin a
1grm VAL VAL A   6 ldl N  5      17 gramicidin a
1grm VAL VAL A   8 ldl N  5      17 gramicidin a
1grm VAL VAL B   6 ldl N  5      17 gramicidin a
1grm VAL VAL B   8 ldl N  5      17 gramicidin a
1hai PHE PHE I   1 _dl X  2.40    3 d-phe-pro-arg-CH2
1hao PHE PHE P 297 _dl X  2.80    3 d-phe-pro-arg-CH2
1hap PHE PHE P 297 _dl X  2.80    3 d-phe-pro-arg-CH2
1hcw PRO PRO     4 ldl N 35      23 designed peptide
1hg1 ASP DSP A 350 _d_ X  1.80    1 d-asp
1hg1 ASP DSP B 350 _d_ X  1.80    1 d-asp
1hg1 ASP DSP C 350 _d_ X  1.80    1 d-asp
1hg1 ASP DSP D 350 _d_ X  1.80    1 d-asp
1hlt PHE PHE I   1 _dl X  3.00    3 d-phe-pro-arg-ch2
1hlt PHE PHE M   1 _dl X  3.00    3 d-phe-pro-arg-ch2
1htl PHE PHE I   1 _dl X  3.00    3 d-phe-pro-arg-CH2
1hut PHE PHE I   1 _dl X  2.90    3 d-phe-pro-arg-CH2
1i3w PRO DPR    43 ddl X  1.70   11 actinomycin d
1i3w PRO DPR    48 ddl X  1.70   11 actinomycin d
1i3w PRO DPR    54 ddl X  1.70   11 actinomycin d
1i3w PRO DPR    59 ddl X  1.70   11 actinomycin d
1i3w PRO DPR    65 ddl X  1.70   11 actinomycin d
1i3w PRO DPR    70 ddl X  1.70   11 actinomycin d
1i3w PRO DPR    76 ddl X  1.70   11 actinomycin d
1i3w PRO DPR    81 ddl X  1.70   11 actinomycin d
1i3w THR DTH    41 _dd X  1.70   11 actinomycin d
1i3w THR DTH    46 _dd X  1.70   11 actinomycin d
1i3w THR DTH    52 _dd X  1.70   11 actinomycin d
1i3w THR DTH    57 _dd X  1.70   11 actinomycin d
1i3w THR DTH    63 _dd X  1.70   11 actinomycin d
1i3w THR DTH    68 _dd X  1.70   11 actinomycin d
1i3w THR DTH    74 _dd X  1.70   11 actinomycin d
1i3w THR DTH    79 _dd X  1.70   11 actinomycin d
1i3w VAL DVA    42 ddd X  1.70   11 actinomycin d
1i3w VAL DVA    47 ddd X  1.70   11 actinomycin d
1i3w VAL DVA    53 ddd X  1.70   11 actinomycin d
1i3w VAL DVA    58 ddd X  1.70   11 actinomycin d
1i3w VAL DVA    64 ddd X  1.70   11 actinomycin d
1i3w VAL DVA    69 ddd X  1.70   11 actinomycin d
1i3w VAL DVA    75 ddd X  1.70   11 actinomycin d
1i3w VAL DVA    80 ddd X  1.70   11 actinomycin d
1ic9 ALA DAL A  23 ldl N 30      29 designed beta-sheet mini protein TH10AOX
1ic9 PRO DPR A   8 ldl N 30      29 designed beta-sheet mini protein TH10AOX
1icl ALA DAL A  23 ldl N 38      29 designed beta-sheet mini protein TH1OX
1icl PRO DPR A   8 ldl N 38      29 designed beta-sheet mini protein TH1OX
1ico ALA DAL A  23 ldl N 42      29 designed beta-sheet mini protein TH10BOX
1ico PRO DPR A   8 ldl N 42      29 designed beta-sheet mini protein TH10BOX
1ihs PHE PHE I   1 _dl X  2.00   22 hirutonin-2
1iht PHE PHE I   1 _dl X  2.10   14 hirutonin-6
1ikf ALA DAL C 508 ldl X  2.50 C 11 cyclosporin
1jno LEU DLE A   4 ldl N  1      17 gramicidin a
1jno LEU DLE A  10 ldl N  1      17 gramicidin a
1jno LEU DLE A  12 ldl N  1      17 gramicidin a
1jno LEU DLE A  14 ldl N  1      17 gramicidin a
1jno LEU DLE B   4 ldl N  1      17 gramicidin a
1jno LEU DLE B  10 ldl N  1      17 gramicidin a
1jno LEU DLE B  12 ldl N  1      17 gramicidin a
1jno LEU DLE B  14 ldl N  1      17 gramicidin a
1jno VAL DVA A   6 ldl N  1      17 gramicidin a
1jno VAL DVA A   8 ldl N  1      17 gramicidin a
1jno VAL DVA B   6 ldl N  1      17 gramicidin a
1jno VAL DVA B   8 ldl N  1      17 gramicidin a
1jo3 LEU DLE A   4 ldl N  1      17 gramicidin b
1jo3 LEU DLE A  10 ldl N  1      17 gramicidin b
1jo3 LEU DLE A  12 ldl N  1      17 gramicidin b
1jo3 LEU DLE A  14 ldl N  1      17 gramicidin b
1jo3 LEU DLE B   4 ldl N  1      17 gramicidin b
1jo3 LEU DLE B  10 ldl N  1      17 gramicidin b
1jo3 LEU DLE B  12 ldl N  1      17 gramicidin b
1jo3 LEU DLE B  14 ldl N  1      17 gramicidin b
1jo3 VAL DVA A   6 ldl N  1      17 gramicidin b
1jo3 VAL DVA A   8 ldl N  1      17 gramicidin b
1jo3 VAL DVA B   6 ldl N  1      17 gramicidin b
1jo3 VAL DVA B   8 ldl N  1      17 gramicidin b
1jo4 LEU DLE A   4 ldl N  1      17 gramicidin c
1jo4 LEU DLE A  10 ldl N  1      17 gramicidin c
1jo4 LEU DLE A  12 ldl N  1      17 gramicidin c
1jo4 LEU DLE A  14 ldl N  1      17 gramicidin c
1jo4 LEU DLE B   4 ldl N  1      17 gramicidin c
1jo4 LEU DLE B  10 ldl N  1      17 gramicidin c
1jo4 LEU DLE B  12 ldl N  1      17 gramicidin c
1jo4 LEU DLE B  14 ldl N  1      17 gramicidin c
1jo4 VAL DVA A   6 ldl N  1      17 gramicidin c
1jo4 VAL DVA A   8 ldl N  1      17 gramicidin c
1jo4 VAL DVA B   6 ldl N  1      17 gramicidin c
1jo4 VAL DVA B   8 ldl N  1      17 gramicidin c
1jy9 PRO DPR A  10 ldl NA 1      20 de novo protein
1l1v VAL DVA B  19 ldl N  6      11 actinomycin d
1l1v VAL DVA B  24 ldl N  6      11 actinomycin d
1lcm ALA DAL     1 _dl NA 1       7 cyclo -d-ala-leu-acb-arg-add-ilg-dam
1loc ALA ALA 1 951 ldd X  2.00    4 muramyl dipeptide-d-ala-d-igln-NH2
1loc ALA ALA 2 961 ldd X  2.00    4 muramyl dipeptide-d-ala-d-igln-NH2
1loc ALA ALA 3 971 ldd X  2.00    4 muramyl dipeptide-d-ala-d-igln-NH2
1loc ALA ALA 4 981 ldd X  2.00    4 muramyl dipeptide-d-ala-d-igln-NH2
1mag LEU DLE A   4 ldl N  1      17 gramicidin a
1mag LEU DLE A  10 ldl N  1      17 gramicidin a
1mag LEU DLE A  12 ldl N  1      17 gramicidin a
1mag LEU DLE A  14 ldl N  1      17 gramicidin a
1mag LEU DLE B   4 ldl N  1      17 gramicidin a
1mag LEU DLE B  10 ldl N  1      17 gramicidin a
1mag LEU DLE B  12 ldl N  1      17 gramicidin a
1mag LEU DLE B  14 ldl N  1      17 gramicidin a
1mag VAL DVA A   6 ldl N  1      17 gramicidin a
1mag VAL DVA A   8 ldl N  1      17 gramicidin a
1mag VAL DVA B   6 ldl N  1      17 gramicidin a
1mag VAL DVA B   8 ldl N  1      17 gramicidin a
1mcb PHE PHE P   2 ldl X  2.70    5 ace-gln-d-phe-his-d-pro-oh
1mcb PRO PRO P   4 ld_ X  2.70    5 ace-gln-d-phe-his-d-pro-oh
1mcc PHE PHE P   2 ldl X  2.70    5 ace-gln-d-phe-his-d-pro-nh2
1mcc PRO PRO P   4 ld_ X  2.70    5 ace-gln-d-phe-his-d-pro-nh2
1mcd PHE PHE P   1 _dl X  2.70    5 ace-d-phe-bal-his-d-pro-nh2
1mcd PRO PRO P   4 ld_ X  2.70    5 ace-d-phe-bal-his-d-pro-nh2
1mce PHE PHE P   2 ldl X  2.70    6 ace-gln-d-phe-his-d-pro-bal
1mce PRO PRO P   4 ldl X  2.70    6 ace-gln-d-phe-his-d-pro-bal
1mcf PHE PHE P   2 ldl X  2.70    7 ace-gln-d-phe-his-d-pro-bal-bal
1mcf PRO PRO P   4 ldl X  2.70    7 ace-gln-d-phe-his-d-pro-bal-bal
1mch PHE PHE P   2 ldl X  2.70    7 ace-gln-d-phe-his-d-pro-bal-bal
1mch PRO PRO P   4 ldl X  2.70    7 ace-gln-d-phe-his-d-pro-bal-bal
1mci PHE PHE P   1 _dl X  2.70    4 ace-d-phe-his-d-pro-oh
1mci PRO PRO P   3 ld_ X  2.70    4 ace-d-phe-his-d-pro-oh
1mcj PHE PHE P   1 _dl X  2.70    4 ace-d-phe-his-d-pro-nh2
1mcj PRO PRO P   3 ld_ X  2.70    4 ace-d-phe-his-d-pro-nh2
1mck GLU GLU P   1 _dl X  2.70    4 ace-d-glu-his-d-pro-nh2
1mck PRO PRO P   3 ld_ X  2.70    4 ace-d-glu-his-d-pro-nh2
1mcl HIS HIS P   1 _dl X  2.70    3 ace-d-his-pro-oh
1mcn HIS HIS P   1 _dl X  2.70    3 ace-d-his-pro-nh2
1mcq PRO PRO P   2 ld_ X  2.70    3 ace-his-d-pro-nh2
1mcr PRO PRO P   2 ld_ X  2.70    3 ace-his-d-pro-oh
1mcs PHE PHE P   2 ldl X  2.70    5 ace-gln-d-phe-his-d-pro-oh
1mcs PRO PRO P   4 ld_ X  2.70    5 ace-gln-d-phe-his-d-pro-oh
1mic LEU DLE A   4 ldl N 20      17 gramicidin a
1mic LEU DLE A  10 ldl N 20      17 gramicidin a
1mic LEU DLE A  12 ldl N 20      17 gramicidin a
1mic LEU DLE A  14 ldl N 20      17 gramicidin a
1mic LEU DLE B   4 ldl N 20      17 gramicidin a
1mic LEU DLE B  10 ldl N 20      17 gramicidin a
1mic LEU DLE B  12 ldl N 20      17 gramicidin a
1mic LEU DLE B  14 ldl N 20      17 gramicidin a
1mic VAL DVA A   6 ldl N 20      17 gramicidin a
1mic VAL DVA A   8 ldl N 20      17 gramicidin a
1mic VAL DVA B   6 ldl N 20      17 gramicidin a
1mic VAL DVA B   8 ldl N 20      17 gramicidin a
1mik ALA DAL B   8 ldl X  1.76 C 11 cyclosporin (modified)
1nrq PHE PHE R  39 _dl X  3.50   11 thrombin receptor peptide 
1nrr PHE PHE P 301 _dl X  2.40    3 d-phe-pro-arg-CH2
1pek ALA ALA D   5 _dl X  2.20    6 n-ac-pro-ala-pro-phe-d-ala-ala-nh2
1pfx PHE PHE I   1 _dl X  3.00    3 d-phe-pro-arg
1ppb PHE PHE I   1 _dl X  3.30    3 d-phe-pro-arg-CH2
1qfb TRP DTR A   4 ldl N 20       9 contryphan-r
1qfk PHE DPN C   1 _dl X  2.80    3 d-phe-phe-arg
1qng ALA DAL D 208 ldl X  2.10 C 11 cyclosporin a
1qnh ALA DAL C 208 ldl X  2.10 C 11 cyclosporin a
1qnh ALA DAL D 208 ldl X  2.10 C 11 cyclosporin a
1qte ALA DAL B 654 ld_ X  1.90    4 nag-ah0-ala-d-ala
1qur GLU DGL I  65 1d_ X  2.00   18 benzamidine based synthetic inhibitor 
1soc PHE DPN     1 _dl NA 1A      8 sandostatin (beta structure)
1soc TRP DTR     4 ldl NA 1       8 sandostatin (beta structure)
1tbz PHE DPN R 343 _dl X  2.30    4 d-phe-pro-arg-bot
1thp PHE PHE C 301 _dl X  2.10    3 d-phe-pro-arg-chloromethylketone
1tmb PHE PHE T  51 ldl X  2.30 C  7 cyclotheonamide
1tmt PHE PHE I   1 _dl X  2.20    3 d-phe-pro-arg
1tmu PHE PHE I   1 _dl X  2.50    3 d-phe-pro-arg-CH2
1vbs ALA DAL B   3 ldl X  2.00    5 ala-d-ala-pro-phe-nit
1xbh CYS DCY A  13 ld_ N 15      13 beta haipin mimic
209d PRO DPR    20 ddl X  3.00   11 actinomycin d
209d PRO DPR    25 ddl X  3.00   11 actinomycin d
209d THR DTH    18 _dd X  3.00   11 actinomycin d
209d THR DTH    23 _dd X  3.00   11 actinomycin d
209d VAL DVA    19 ddd X  3.00   11 actinomycin d
209d VAL DVA    24 ddd X  3.00   11 actinomycin d
2d55 PRO DPR    20 ddl X  3.00   11 actinomycin d
2d55 PRO DPR    25 ddl X  3.00   11 actinomycin d
2d55 THR DTH    23 _dd X  3.00   11 actinomycin d
2d55 VAL DVA    24 ddd X  3.00   11 actinomycin d
2d5d THR DTH    18 _dd X  3.00   11 actinomycin d
2d5d VAL DVA    19 ddd X  3.00   11 actinomycin d
2da8 SER SER A   1 _dl N  8       5 qui-d-ser-ala-cys-val
2da8 SER SER B   1 _dl N  8       5 qui-d-ser-ala-cys-val
2hgt PHE PHE I   1 _dl X  2.20    3 d-phe-pro-arg (cleaved hirulog i)
2hpp PHE PHE I   1 _dl X  3.30    3 d-phe-pro-arg-CH2
2hpq PHE PHE I   1 _dl X  3.30    3 d-phe-pro-arg-CH2
2rma ALA ALA B   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA D   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA F   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA H   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA J   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA L   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA N   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA P   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA R   8 ldl X  2.10 C 11 cyclosporin a
2rma ALA ALA T   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA B   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA D   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA F   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA H   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA J   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA L   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA N   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA P   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA R   8 ldl X  2.10 C 11 cyclosporin a
2rmb ALA ALA T   8 ldl X  2.10 C 11 cyclosporin a
2rmc ALA ALA B   8 ldl X  1.64 C 11 cyclosporin a
2rmc ALA ALA D   8 ldl X  1.64 C 11 cyclosporin a
2rmc ALA ALA F   8 ldl X  1.64 C 11 cyclosporin a
2rmc ALA ALA H   8 ldl X  1.64 C 11 cyclosporin a
2soc PHE DPN     1 _dl N  2       8 sandostatin (helical structure)
2soc TRP DTR     4 ldl N  2       8 sandostatin (helical structure)
2thf PHE PHE A 301 _dl X  2.10    3 d-phe-pro-arg-chloromethylketone
316d PRO DPR    20 ddl X  3.00   11 actinomycin d
316d PRO DPR    25 ddl X  3.00   11 actinomycin d
316d THR DTH    18 _dd X  3.00   11 actinomycin d
316d THR DTH    23 _dd X  3.00   11 actinomycin d
316d VAL DVA    19 ddd X  3.00   11 actinomycin d
316d VAL DVA    24 ddd X  3.00   11 actinomycin d
3cys ALA ALA B 208 ldl N 22    C 11 cyclosporin a
4thn GLU DGL I  26 ld_ X  2.50   11 synthetic inhibitor
5gds GLU DGL I  26 ld_ X  2.10   15 hirunorm v
(this list contains 492 D-residues from 148 PDB entries)


(To interpret headings, see explanatory notes further down this page)

D-Configurations of Unnatural and Modified Amino Acids

Code Res Rna  Rnu  Con Exptyp     # Details

10gs PGY PGY G   3 ld_ X  2.20    3 PGY is phenylglycine
10gs PGY PGY H   3 ld_ X  2.20    3 PGY is phenylglycine
1ay6 HMF HMF J   5 _dl X  1.80 C  6 HMF is 2-amino-4-phenylbutyric acid
1bdk IGL IGL     8 ldl N  1      10 IGL is a-amino-2-indanacetic acid
1bll LEU LEU I   1 _dl X  2.40    5 amastatin; LEU adjacent to formyl group
1cwh SER DSE C   3 ldl X  1.86 C 11 cyclosporin (modified) N-methylated
1cwi MAA MAA C   3 ldl X  1.86 C 11 cyclosporin (modified) N-methyl-D-alanine
1cyn ALA DAL C   8 ldl X  1.85 C 11 cyclosporin (modified) cholinyl
1dlz DIV DIV A   5 ldl N 20      16 zervamicin iib; DIV is d-isovaline
1dsr ORN ORN     4 ddd N  6      17 ramoplanin; ORN is ornithine
1dsr ORN ORN    10 ldl N  6      17 ramoplanin; ORN is ornithine
1ee7 DIV DIV A   6 _dl N  1      20 peptaibol chryospermin c
1hbt ALA ALA I   1 _dl X  2.00   18 ALA is modified to cyclohexyl-d-ala
1ih9 DIV DIV A   5 ldl N 20      17 zervamicin iib
1joh DIV DIV A   6 _dl X  1.40   17 antiamoebin i
1joh DIV DIV A  13 ldl X  1.40   17 antiamoebin i
1joh DIV DIV B   6 _dl X  1.40   17 antiamoebin i
1joh DIV DIV B  13 ldl X  1.40   17 antiamoebin i
1loc GLU GLU 1 952 dd_ X  2.00    4 muramyl dipeptide-d-ala-d-igln-NH2
1loc GLU GLU 3 972 dd_ X  2.00    4 muramyl dipeptide-d-ala-d-igln-NH2
1loc GLU GLU 4 982 dd_ X  2.00    4 muramyl dipeptide-d-ala-d-igln-NH2
(this list contains 21 D-residues from 14 PDB entries)


(To interpret headings, see explanatory notes below)

Explanatory Notes

Code is the PDB code of the entry containing the D-residue.

Res gives the conventional 3 letter code residue type.

Rna gives 3 letter residue code used in the PDB file. This may explicitlyindicate a D-conformation, such as with DAL, DPN etc.

Rnu is the chain ID and residue number of the D-residue from the PDB file.

Con gives the chirality of the successive C_alpha chiral centres immediately preceding, corresponding to, and immediately after the named residue. The designation 'l' means a normal L-amino acid, but also here includes any achiral C_alpha such as glycine. The 'd' designation means a D-amino acid. The '_' designation means either that there is no residue (ends of a chain), or that the chemical entity here is sufficiently non-peptidic that it is not considered meaningful to identify an amino acid-like chiral configuration.

Exptyp is the experiment type, either 'X' followed by a resolution in angstroms for X-ray structures or 'N' followed by a number of models for NMR structures. 'NA' denotes an averaged NMR strucutre. For the representative set, NMR model 1 is always chosen as the representative of an ensemble. This is indicated by nomenclature such as 1/20 (model 1 of 20) etc.

The quantities described in orange type are given only for the representative set and for the list of residues in LDL local configurations. They are calculated by PROCHECK (v 3.5.4)

SS Kabsch & Sander secondary structure assignment: E = beta strand, H = alpha helix, G = 3₁₀ helix, T = H-bonded turn, S = bend.

phi & psi main-chain torsion angles.

zeta C-alpha improper torsion angle. Values around 34^o indicate good L-residues, Values around -34^o indicate good D-residues.

# is an estimate of the number of amino acid residues in the chain containing the D-residue. It is less meaningful when the molecule has significant non-peptidic components. In general, a large value suggests that the D-residue is in a 'protein' and a small value suggests that it is in a 'ligand'. A 'C' before this number indicates a cyclic peptide.

Details gives more information on the molecule containing the D-amino acid.

Structures Believed to Contain Real D-Residues but Excluded from Analysis

1c4d (7/24 D-residues have very poor zeta angles)
1d7t (residue DTY A 4 has zeta improper torsion angle of an L-residue)
1jzp (residue DAR A 18 has zeta improper torsion angle of an L-residue)
(this list of excluded structures with real D-residues contains 3 PDB entries)

Structures Excluded as D-Residues are Probable Artefacts

173l (missing atom in LYS 162)
1914 (chirality is 'unexpected')
1a2s (chirality is 'unexpected')
1a70 (chirality described as 'incorrect')
1a7s (C alpha almost planar)
1acp (low quality NMR structure)
1adn (chirality varies between models; D-residue is an end residue)
1alc (LYS 122 is in highly flexible C-terminal region)
1aw3 (averaged NMR structure with bad Ramachandran)
1axx (chirality varies between models; D-residue is an end residue)
1ay3 (primary literature suggests that GLU A 4 is gamma-glu and l-)
1azb (highly distorted ALA C alpha)
1b86 (CAVEAT given in PDB file)
1ba9 (authors believe it an artefact; main D-residue is an end residue)
1bbs (PDB file refers to 'chirality error')
1bc6 (chirality varies between models; D-residue is an end residue)
1bd6 (chirality 'unexpected'; averaged NMR; D-residue is an end residue)
1bfx (D-residues are close to ends where disorder occurs)
1bfy (chirality varies between models; D-residue is an end residue)
1bgl (literature -> no evidence for D-chirality of ASN E 118)
1bhm (highly distorted MET C alpha)
1blb (PDB file refers to 'chirality errors')
1blv (CAVEAT given in PDB file)
1bmu (theoretical model)
1bwd (C alpha almost planar)
1c12 (large bond length & angle distortions in ASN)
1c84 (CAVEAT given in PDB file)
1c85 (CAVEAT given in PDB file)
1c9g (theoretical model)
1cdd (PDB file refers to 'chirality error')
1ced (inconsistent chirality between models)
1chm (chirality thought to be an artefact)
1ck8 (inconsistent chirality between models)
1cn9 (inconsistent chirality between models)
1cts (C alpha almost planar)
1ctx (chirality of CYS P 14 differs from later 2ctx)
1d0z (C alpha almost planar)
1d3o (theoretical model)
1d7g (theoretical model)
1dbd (CAVEAT given in PDB file)
1dbq (C alpha almost planar)
1dco (chirality is 'unexpected')
1dcp (chirality is 'unexpected')
1de5 (CAVEAT given in PDB file)
1dh2 (superseded by 1lio; CAVEAT given in PDB file)
1diu (C alpha planar)
1djy (literature and comparison with chain B suggest THR A 581 is l-thr)
1dl7 (CAVEAT given in PDB file)
1do9 (chirality varies between models; D-residue is an end residue)
1drs (analysis tools suggest this is not a high quality structure)
1ds7 (highly distorted MET C alpha)
1dsw (CAVEAT given in PDB file)
1dtd (literature -> no evidence for D-chirality of free amino acid GLU 300)
1e08 (CAVEAT given in PDB file)
1e5o (no available data to assess veracity of d-MET I 2)
1e8g (some large distortions)
1ebh (partial occupancy & no literature evidence for D-chirality of ALA A/B 38)
1ee2 (CAVEAT given in PDB file)
1ehj (CAVEAT given in PDB file)
1ehq (theoretical model; CAVEAT given in PDB file))
1eky (inconsistent chirality between models)
1epr (distortion in region of GLN E 135)
1exy (inconsistent chirality between models)
1eze (inconsistent chirality between models)
1f03 (CAVEAT given in PDB file; D-residue is an end residue)
1f04 (CAVEAT given in PDB file; inconsistent chirality in models)
1f8h (C alpha almost planar)
1flz (CAVEAT given in PDB file)
1fq4 (CAVEAT given in PDB file)
1fq5 (CAVEAT given in PDB file; C alpha almost planar)
1fq6 (CAVEAT given in PDB file)
1fq8 (CAVEAT given in PDB file)
1g2z (highly distorted SER C alpha)
1gfl (C alpha planar)
1gfx (theoretical model; CAVEAT given in PDB file)
1gki (CAVEAT given in PDB file)
1gkj (CAVEAT given in PDB file)
1gkm (CAVEAT given in PDB file)
1glc (chirality due to limitations of data)
1gld (chirality due to limitations of data)
1gle (chirality due to limitations of data)
1gma (superseded by 1alz)
1gsm (chirality 'unexpected'; D-residue is almost flat)
1gup (C alpha almost planar)
1h4r (CAVEAT given in PDB file; D-residue is an end residue)
1h6w (chirality 'unexpected'; D-residue is almost flat)
1h7r (CAVEAT given in PDB file)
1hds (C alpha almost planar)
1ht3 (CAVEAT given in PDB file)
1hyw (inconsistent chirality between models)
1i5u (related 1f03 has CAVEAT; D-residue is an end residue)
1ic1 (highly distorted THR C alpha; chirality 'unexpected')
1idi (CAVEAT given in PDB file)
1iln (theoretical model; C alpha almost planar)
1in9 (theoretical model)
1j6w (highly distorted LEU C alpha)
1jfp (CAVEAT given in PDB file)
1juw (theoretical model; CAVEAT given in PDB file)
1k3g (inconsistent chirality between models)
1kbh (inconsistent chirality between models)
1kky (theoretical model)
1kl0 (theoretical model)
1kwj (CAVEAT given in PDB file; D-residue is an end residue)
1l5g (CAVEAT given in PDB file)
1l82 (highly distorted ASP C alpha)
1l8z (CAVEAT given in PDB file)
1lh9 (theoretical model; CAVEAT given in PDB file)
1lhq (theoretical model; CAVEAT given in PDB file)
1lio (CAVEAT given in PDB file)
1lks (C alpha almost planar)
1lmd (theoretical model)
1lwq (theoretical model; CAVEAT given in PDB file)
1lyz (C alpha almost planar)
1m2c (inconsistent chirality between models)
1mbn (C alpha almost planar)
1mbs ('preliminary' structure with bad Ramachandran)
1mnd (some large distortions)
1mnt (inconsistent chirality between models; C alpha almost planar)
1myp (1/2 D-residues has C alpha almost planar)
1new (chirality varies between models; D-residue is an end residue)
1nf1 (CAVEAT given in PDB file)
1nip (acknowleged as error, see PDB file)
1noe (inconsistency between models)
1nxb (some extreme distortions & known bad structure)
1pcn (chiralities in this average do not reflect underlying models)
1pha (highly distorted TYR C alpha)
1phb (C alpha almost planar)
1phv (theoretical model)
1poa (C alpha almost planar)
1ppf (C alpha almost planar)
1ppn (literature -> no evidence for D-chirality of ARG P58)
1ppo (literature -> no evidence for D-chirality of ARG P58)
1qbc (theoretical model)
1qcl (theoretical model)
1qct (theoretical model)
1qe2 (theoretical model; D-residue is an end residue)
1qiy (chirality is 'unexpected')
1qiz (chirality is 'unexpected')
1qth (CAVEAT given in PDB file)
1qtl (superseded by 1c5f)
1rhs (highly distorted VAL C alpha & chirality 'unexpected')
1rou (C alpha almost planar)
1scc (theoretical model)
1scu (literature -> no evidence for D-chirality: ASN B64, ASP E256, CYS E325, ASN E352; 3/4 distorted)
1sdg (theoretical model)
1skj (chirality of THR 104 differs from 1sps)
1srr (distorted bonds in GLU B 86)
1tce (literature suggests that ALA B 212 is L-ala)
1thb (HIS 'very poorly ordered')
1ttt (highly distorted THR C alpha)
1txa (chiralities in this average do not reflect underlying models)
1van (theoretical model)
1vnd (inconsistent chirality between models)
1whs (some missing atoms close to GLN B 423; D-residue is an end residue)
1yps (theoretical model)
1ysc (PDB file refers to 'chirality problem')
1zdb (chiralities in this average do not reflect underlying models)
2axx (chirality varies between models; D-residue is an end residue)
2c2c (highly distorted LYS C alpha)
2gbq (inconsistent chirality between models)
2h1p (chirality is 'unexpected')
2jxr (some large distortions)
2msh (theoretical model)
2new (chirality varies between models; D-residue is an end residue)
2pde (severe distortions & poor structure)
2phv (theoretical model)
2pte (theoretical model)
2tbv (PDB file notes 'wrong chirality')
2xbh (superseded by 1c4b)
3aid (D-residues are end residues of chain and thought to be artefacts)
3c2c (highly distorted LYS C alpha)
3csc (literature -> no evidence for D-chirality: SER 174; somewhat distorted)
3dfr (chirality varies between models; D-residue is an end residue)
3mth (poor electron density around end residue LYS B 29)
4csc (literature -> no evidence for D-chirality: SER 2; distorted)
4cts (literature and comparison with chain A suggest ASN B 307 is l-asn)
4lyt (The differing chirality of LEU 17 between chains suggests an artefact)
4ovo (some large distortions; D-residue is an end residue)
4q21 (highly distorted GLU C alpha)
4tmn (C alpha almost planar)
5csc (poor quality data & sequence uncertainty)
5ttr (comparison between chains suggests chirality is an artefact)
6adh (C alpha almost planar)
6cmh (CAVEAT given in PDB file)
6gpb (C alpha almost planar)
6q21 (comparison between chains suggests chirality is an artefact)
(this list of excluded structures with artefactual D-residues contains 186 PDB entries)

Disclaimer

This document is intended for guidance purposes only and no guarantee is provided nor liability accepted. The listing of a structure as a probable artefact or exclusion from the list implies no pejorative comment on the experiments or researchers concerned. If you wish to make comments or suggest changes to this document, you may mail jbom1@cam.ac.uk.

Acknowledgements

The preparation of this document utilised data from PDBsum at University College London and from the PDBREPORT database at Nijmegen. I would like to thank Elmar Krieger (Nijmegen) for assistance with the PDBREPORT search. Dr James Smith (Cambridge) wrote a set of scripts allowing us to search for D-residues in the April 2002 release of the PDB, for which we also used the PROCHECKsuite of programs.

Click here to go (or return) to the Mitchell research group home page.