Contacts of the helix formed by residues 54 - 84 (chain D) in PDB entry 2WP9


Residue contacts within the protein are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332). A short description of the analytical approach is given at the end of the page.
For CSU analysis of other PDB entry

Note:
Non-standard 3 letter residue codes indicate a heterogroup. To identify and analyse, use LPC software

Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB   - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC   - hydrophobic-hydrophilic contact (destabilizing contact)
+/-  - indicates presence/absence of a specific contacts
*    - indicates residues forming contacts  by their side chain
       (including CA atoms)
Residues in contact with SER 54 (chain D).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     32D  TYR*     4.9     0.9    +      -       -      -
     50D  GLY      3.4     7.8    +      -       -      -
     51D  PHE*     3.2    18.3    +      -       -      -
     53D  ALA*     1.3    80.0    -      -       -      +
     55D  ALA*     1.3    65.5    +      -       -      +
     56D  PHE*     3.3    22.5    +      -       -      +
     57D  THR*     3.0     8.4    +      -       -      -
     58D  LYS*     2.9    21.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 55 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     53D  ALA      3.4     4.3    +      -       -      -
     54D  SER*     1.3    71.5    +      -       -      +
     56D  PHE*     1.3    64.3    +      -       -      +
     58D  LYS*     4.5     8.5    -      -       -      -
     59D  VAL*     3.0    33.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 56 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     32D  TYR*     3.4    41.5    -      +       -      +
     54D  SER*     3.1    11.2    +      -       -      +
     55D  ALA*     1.3    80.6    -      -       -      +
     57D  THR*     1.3    62.8    +      -       -      +
     59D  VAL*     3.9     3.6    -      -       -      +
     60D  PHE*     3.0    51.6    +      +       +      +
----------------------------------------------------------
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Residues in contact with THR 57 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     32D  TYR*     2.5    32.0    +      -       +      +
     33D  MET*     5.0     0.9    -      -       -      -
     51D  PHE*     3.0    50.2    +      -       +      +
     52D  PHE*     3.8    29.8    -      -       +      -
     54D  SER*     3.0     8.3    +      -       -      -
     56D  PHE*     1.3    78.8    -      -       -      +
     58D  LYS*     1.3    60.9    +      -       -      +
     60D  PHE*     4.0     0.3    -      -       -      +
     61D  THR*     2.8    36.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 58 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     52D  PHE*     3.7    20.9    -      -       -      +
     53D  ALA      3.7    20.2    +      -       -      +
     54D  SER      2.9    12.5    +      -       -      +
     55D  ALA*     3.8     7.4    -      -       -      +
     57D  THR*     1.3    78.4    -      -       -      +
     59D  VAL*     1.3    66.4    +      -       +      +
     61D  THR*     3.7     3.8    -      -       -      -
     62D  LEU*     3.0    31.7    +      -       +      +
    112D  VAL*     3.4    45.3    +      -       +      +
    113D  TRP*     5.1     6.7    +      -       -      +
    115D  VAL*     3.9    18.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 59 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     55D  ALA*     3.0    21.3    +      -       +      +
     56D  PHE*     3.9     2.9    -      -       -      +
     58D  LYS*     1.3    78.0    -      -       +      +
     60D  PHE*     1.3    67.4    +      -       -      +
     62D  LEU*     3.0     8.9    +      -       -      +
     63D  LEU*     2.9    31.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 60 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     25D  VAL*     4.3    15.3    -      -       +      -
     28D  LEU*     3.8    14.6    -      -       +      -
     29D  TYR*     3.5    44.2    -      +       +      -
     32D  TYR*     3.8    29.2    -      +       +      -
     56D  PHE*     3.0    48.8    +      +       +      +
     57D  THR*     4.0     4.9    -      -       -      +
     59D  VAL*     1.3    78.6    -      -       -      +
     61D  THR*     1.3    56.9    +      -       -      +
     63D  LEU*     3.3    16.2    +      -       +      +
     64D  ALA*     2.9    27.9    +      -       +      +
----------------------------------------------------------
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Residues in contact with THR 61 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45C  LEU*     6.4     1.3    -      -       +      -
     48C  LEU*     5.5     6.5    -      -       +      -
     29D  TYR*     2.8    32.7    +      -       -      +
     52D  PHE*     4.3     9.4    -      -       +      -
     57D  THR*     2.8    32.2    +      -       -      +
     58D  LYS*     3.7     4.9    -      -       -      -
     60D  PHE*     1.3    77.4    -      -       -      +
     62D  LEU*     1.3    58.1    +      -       +      +
     64D  ALA*     3.2     3.5    +      -       -      +
     65D  LEU*     3.0    40.7    +      -       +      +
    112D  VAL*     4.6    19.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 62 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     58D  LYS*     3.0    19.4    +      -       +      +
     59D  VAL*     3.0     7.6    +      -       -      +
     61D  THR*     1.3    72.6    -      -       +      +
     63D  LEU*     1.3    67.4    +      -       -      +
     65D  LEU*     3.1    12.4    +      -       +      +
     66D  PHE*     3.1    32.0    +      -       +      -
    105D  VAL*     4.4     4.9    -      -       +      +
    108D  GLY      4.3     3.4    -      -       -      -
    109D  PHE*     3.5    66.0    -      -       +      +
    112D  VAL*     3.7    26.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 63 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     25D  VAL*     4.1    21.5    -      -       +      -
     59D  VAL*     2.9    20.5    +      -       +      +
     60D  PHE*     3.3    24.7    -      -       +      +
     62D  LEU*     1.3    75.5    -      -       -      +
     64D  ALA*     1.3    58.7    +      -       -      +
     66D  PHE*     3.2    14.1    +      -       +      +
     67D  SER*     2.9    38.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 64 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     25D  VAL*     5.1     3.4    -      -       -      -
     26D  LEU*     3.4    18.2    -      -       +      +
     29D  TYR*     3.6    37.2    -      -       +      -
     60D  PHE*     2.9    14.4    +      -       -      +
     61D  THR      3.4     9.0    -      -       -      +
     63D  LEU*     1.3    76.2    -      -       -      +
     65D  LEU*     1.3    58.9    +      -       +      +
     67D  SER*     3.2     2.4    +      -       -      -
     68D  ILE*     2.8    36.4    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     41C  VAL*     5.0     4.3    -      -       +      -
     45C  LEU*     3.8    32.1    -      -       +      -
     61D  THR*     3.0    32.2    +      -       +      +
     62D  LEU*     3.1    15.7    +      -       +      +
     64D  ALA*     1.3    75.8    -      -       +      +
     66D  PHE*     1.3    59.1    +      -       -      +
     68D  ILE*     3.2    20.0    +      -       +      +
     69D  LEU      2.9    22.5    +      -       -      -
    104D  TYR*     4.2    14.1    -      -       +      +
    105D  VAL*     3.6    25.4    -      -       +      +
    108D  GLY*     3.6    32.8    -      -       -      -
----------------------------------------------------------
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Residues in contact with PHE 66 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     62D  LEU*     3.1    28.8    +      -       +      -
     63D  LEU*     3.6    14.1    -      -       +      +
     65D  LEU*     1.3    75.4    -      -       -      +
     67D  SER*     1.3    64.5    +      -       -      +
     69D  LEU*     2.9    31.4    +      -       +      +
     70D  ILE*     3.1    25.3    +      -       +      +
    105D  VAL*     4.4    19.5    -      -       +      -
    109D  PHE*     4.2    24.9    -      +       -      -
----------------------------------------------------------
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Residues in contact with SER 67 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     22D  THR*     3.7    23.2    -      -       -      +
     25D  VAL*     3.3    24.0    -      -       -      +
     26D  LEU*     3.7    23.6    -      -       -      -
     63D  LEU*     2.9    20.0    +      -       -      +
     64D  ALA      3.4     7.9    -      -       -      -
     66D  PHE*     1.3    76.9    -      -       -      +
     68D  ILE*     1.3    57.0    +      -       -      +
     70D  ILE*     3.4     1.1    +      -       -      -
     71D  HIS*     2.8    33.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 68 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     38C  PHE*     6.1     1.1    -      -       +      -
     41C  VAL*     4.7    33.4    -      -       +      -
     26D  LEU*     3.7    26.9    -      -       +      -
     29D  TYR*     6.2     1.8    -      -       +      -
     64D  ALA*     2.8    29.4    +      -       +      +
     65D  LEU*     3.7    20.0    -      -       +      +
     67D  SER*     1.3    74.3    -      -       -      +
     69D  LEU*     1.3    67.5    +      -       -      +
     71D  HIS*     4.5     2.2    -      -       -      +
     72D  ALA*     2.9    30.3    +      -       +      +
    101D  LEU*     4.0    16.2    -      -       +      -
    104D  TYR*     4.9     3.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 69 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     65D  LEU      2.9    13.1    +      -       -      +
     66D  PHE*     2.9    25.7    +      -       +      +
     68D  ILE*     1.3    76.6    -      -       -      +
     70D  ILE*     1.3    67.9    +      -       +      +
     73D  TRP*     3.1    29.8    +      -       +      +
     98D  VAL*     4.8     3.4    -      -       +      +
    101D  LEU*     3.4    43.3    -      -       +      +
    102D  VAL*     4.1    18.6    -      -       +      +
    105D  VAL*     4.0    16.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 70 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     18D  LEU*     4.2    27.1    -      -       +      -
     22D  THR*     4.1    16.8    -      -       +      -
     66D  PHE*     3.1    24.0    +      -       +      +
     67D  SER*     4.0     2.9    -      -       -      +
     69D  LEU*     1.3    83.0    -      -       +      +
     71D  HIS*     1.3    64.9    +      -       -      +
     73D  TRP*     3.3     5.7    +      -       +      +
     74D  ILE*     3.1    41.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with HIS 71 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     84C  HIS*     4.0    23.3    +      +       -      -
     19D  VAL*     3.0    44.8    +      -       +      +
     22D  THR*     3.0    19.2    +      -       -      +
     23D  ALA*     3.8    20.9    +      -       +      -
     26D  LEU*     4.5    12.8    -      -       +      -
     67D  SER      2.8    21.2    +      -       -      +
     68D  ILE*     4.4     0.9    -      -       -      +
     70D  ILE*     1.3    73.6    -      -       -      +
     72D  ALA*     1.3    63.4    +      -       +      +
     74D  ILE*     3.4     3.3    +      -       -      +
     75D  GLY*     3.0    24.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 72 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     38C  PHE*     4.4    16.6    -      -       +      -
     68D  ILE*     2.9    25.7    +      -       +      +
     71D  HIS*     1.3    81.7    -      -       +      +
     73D  TRP*     1.3    60.2    +      -       -      +
     75D  GLY*     4.2     1.6    -      -       -      +
     76D  MET*     2.9    39.1    +      -       +      +
    101D  LEU*     3.8    19.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with TRP 73 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     69D  LEU*     3.1    25.2    +      -       +      +
     70D  ILE*     3.7     4.5    -      -       +      +
     72D  ALA*     1.3    74.9    -      -       -      +
     74D  ILE*     1.3    73.8    +      -       +      +
     76D  MET*     5.3     0.4    -      -       +      -
     77D  TRP*     3.0    48.2    +      +       +      +
     80D  LEU*     5.3     1.3    -      -       +      -
     94D  GLN*     3.3    46.2    -      -       +      -
     97D  ILE*     4.2    16.6    -      -       +      -
     98D  VAL*     3.5    33.0    -      -       +      -
    101D  LEU*     3.7     9.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 74 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     15D  ASP*     3.9    36.6    -      -       +      +
     18D  LEU*     3.7    19.1    -      -       +      -
     19D  VAL*     3.3    47.3    -      -       +      +
     70D  ILE*     3.1    21.8    +      -       +      +
     71D  HIS      3.7     1.1    -      -       -      +
     73D  TRP*     1.3    85.6    -      -       +      +
     75D  GLY*     1.3    63.6    +      -       -      +
     77D  TRP*     3.2     7.8    +      -       +      +
     78D  GLN*     3.1    40.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLY 75 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     19D  VAL*     5.1     3.1    -      -       -      -
     71D  HIS*     3.0    17.4    +      -       -      -
     72D  ALA*     3.9     2.2    -      -       -      -
     73D  TRP      3.2     0.2    -      -       -      -
     74D  ILE*     1.3    81.6    -      -       -      +
     76D  MET*     1.3    62.3    +      -       -      +
     78D  GLN*     3.2    14.7    +      -       -      +
     79D  VAL*     3.2    26.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with MET 76 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     34C  GLY      5.1     1.3    -      -       -      +
     35C  VAL*     4.3    33.2    -      -       +      -
     38C  PHE*     4.0    42.2    -      -       +      -
     72D  ALA*     2.9    23.8    +      -       +      +
     73D  TRP*     4.2     2.9    -      -       +      +
     75D  GLY*     1.3    75.7    -      -       -      +
     77D  TRP*     1.3    58.1    +      -       -      +
     79D  VAL*     3.3     9.0    +      -       +      +
     80D  LEU*     2.9    41.9    +      -       +      +
     97D  ILE*     3.7    43.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with TRP 77 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    200B  ALA*     3.6    30.3    -      -       +      -
    201B  PHE*     3.8    21.1    -      +       -      -
    205B  ARG*     3.5    17.3    -      -       -      -
     15D  ASP*     4.2    14.8    -      -       -      -
     73D  TRP*     3.0    47.2    +      +       +      +
     74D  ILE*     3.4     7.6    -      -       +      +
     76D  MET*     1.3    75.3    -      -       -      +
     78D  GLN*     1.3    75.0    +      -       +      +
     80D  LEU*     3.5     5.0    +      -       -      +
     81D  THR*     2.8    47.4    +      -       +      +
     90D  ARG*     5.5     2.0    -      -       -      +
     94D  GLN*     3.4    25.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 78 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    204B  PHE      6.1     0.9    -      -       -      -
    205B  ARG*     3.3    31.4    +      -       -      +
    207B  THR*     5.4    10.0    -      -       -      +
     31C  ARG*     4.2    12.0    -      -       -      +
     15D  ASP*     4.9     6.9    -      -       -      +
     19D  VAL*     5.2     4.8    -      -       -      +
     74D  ILE*     3.1    34.7    +      -       -      +
     75D  GLY*     3.2    14.2    +      -       -      +
     77D  TRP*     1.3    88.4    -      -       +      +
     79D  VAL*     1.3    65.8    +      -       +      +
     81D  THR*     3.2    11.6    +      -       -      -
     82D  ASP*     3.3     5.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 79 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     31C  ARG*     3.8    37.2    -      -       +      +
     35C  VAL*     4.3    23.3    -      -       +      -
     75D  GLY      3.2    14.7    +      -       -      +
     76D  MET*     3.3    13.2    +      -       +      +
     78D  GLN*     1.3    77.0    -      -       +      +
     80D  LEU*     1.3    70.1    +      -       +      +
     82D  ASP*     2.9    14.4    +      -       -      +
     83D  TYR*     3.2    34.5    +      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 80 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     73D  TRP*     5.3     1.1    -      -       +      -
     76D  MET*     2.9    27.6    +      -       +      +
     77D  TRP*     3.9     4.0    -      -       -      +
     79D  VAL*     1.3    81.6    -      -       +      +
     81D  THR*     1.3    56.8    +      -       -      +
     82D  ASP      3.0     1.2    +      -       -      -
     83D  TYR*     5.4     0.4    -      -       -      -
     84D  VAL*     2.7    55.3    +      -       +      +
     90D  ARG*     4.1    15.0    -      -       +      +
     93D  LEU*     4.2    18.4    -      -       +      -
     94D  GLN*     3.7    37.0    -      -       +      +
     97D  ILE*     3.8    26.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 81 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    165B  ASN*     3.5    20.6    +      -       -      +
    168B  LYS*     5.5     2.5    +      -       -      -
    201B  PHE*     4.1    11.6    -      -       +      -
    205B  ARG*     2.7    31.7    +      -       -      -
     77D  TRP*     2.8    50.1    +      -       +      +
     78D  GLN      3.2     1.1    +      -       -      -
     80D  LEU*     1.3    74.8    -      -       -      +
     82D  ASP*     1.3    58.6    +      -       -      +
     84D  VAL      4.8     1.8    -      -       -      -
     85D  LYS*     3.6     7.4    +      -       -      +
     90D  ARG*     3.7    31.9    -      -       -      +
     94D  GLN*     4.6     0.7    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 82 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    161B  SER*     5.2     6.2    +      -       -      +
    164B  TRP*     3.5    35.0    -      -       +      +
    165B  ASN*     2.9    14.4    +      -       -      -
    205B  ARG*     2.5    33.1    +      -       -      -
     31C  ARG*     2.9    35.1    +      -       -      +
     78D  GLN      3.3     2.8    +      -       -      -
     79D  VAL      2.9    10.3    +      -       -      +
     81D  THR*     1.3    79.4    -      -       -      +
     83D  TYR*     1.3    71.5    +      -       +      +
     84D  VAL      3.7     0.2    -      -       -      -
     85D  LYS*     3.6    19.8    +      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 83 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    164B  TRP*     3.5    44.5    +      +       -      -
     28C  ILE*     4.3    11.9    -      -       +      +
     31C  ARG*     3.0    45.2    +      -       -      -
     79D  VAL*     3.2    29.7    +      -       +      +
     82D  ASP*     1.3    83.8    -      -       +      +
     84D  VAL*     1.3    68.0    +      -       +      +
     85D  LYS*     3.9     4.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 84 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     80D  LEU*     2.7    41.3    +      -       +      +
     81D  THR*     5.0     0.7    -      -       -      -
     82D  ASP      3.7     0.4    -      -       -      -
     83D  TYR*     1.3    80.7    -      -       +      +
     85D  LYS*     1.3    63.1    +      -       -      +
     86D  PRO*     4.2     5.8    -      -       +      +
     89D  LEU*     4.1    22.7    -      -       +      -
     90D  ARG*     3.1    56.9    +      -       +      +
     93D  LEU*     4.2     9.6    -      -       +      -
----------------------------------------------------------
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A short description of the analytical approach
The contact analysis used in this page is based upon the approach developed in: Sobolev V., Wade R.C., Vriend G. and Edelman M. PROTEINS (1996) 25, 120-129. Contact legitimacy depends on the hydrophobic-hydrophilic properties of the contacting atoms. In order to define it, for each inter-atomic contact, eight atom classes have been introduced:


   I  Hydrophilic      - N and O that can donate and accept hydrogen bonds
                         (e.g., oxygen of hydroxyl group of Ser. or Thr)
  II  Acceptor         - N or O that can only accept a hydrogen bond
 III  Donor            - N that can only donate a hydrogen bond
  IV  Hydrophobic      - Cl, Br, I and all C atoms that are not in
                         aromatic rings and do not have a covalent bond to
                         a N or O atom
   V  Aromatic         - C in aromatic rings irrespective of any other 
                         bonds formed by the atom
  VI  Neutral          - C atoms that have a covalent bond to at least one
                         atom of class I or two or more atoms from class II
                         or III; atoms; S, F, P, and metal atoms in all cases
 VII  Neutral-donor    - C atoms that have a covalent bond with only one
                         atom of class III
VIII  Neutral-acceptor - C atoms that have a covalent bond with only 
                         one atom of class II
For each pair of contacts the state of legitimacy is shown below:

Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
  Atomic class           I  II  III   IV   V   VI  VII  VIII
------------------------------------------------------------
   I  (Hydrophilic)      +   +    +    -   +   +    +    +
  II  (Acceptor)         +   -    +    -   +   +    +    -
 III  (Donor)            +   +    -    -   +   +    -    +
  IV  (Hydrophobic)      -   -    -    +   +   +    +    +
   V  (Aromatic)         +   +    +    +   +   +    +    +
  VI  (Neutral)          +   +    +    +   +   +    +    +
 VII  (Neutral-donor)    +   +    -    +   +   +    -    +
VIII  (Neutral-acceptor) +   -    +    +   +   +    +    -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically assigned based on the atomic coordinates. However, in three cases (see below) the automatic assignment is currently ambiguous. In these cases, the user is advised to manually analyse the full list of contacts using LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are 
   considered "aromatic" (Class V) if the ring is approximately
   planar, and "hydrophobic" (Class IV) or "neutral" (Classes
   VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
   "hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
   "carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).

Please E-mail any questions and/or suggestions concerning this page to Vladimir.Sobolev@weizmann.ac.il