Contacts of the helix formed by residues 392 - 422 (chain M) in PDB entry 2DFS


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 392 (chain M).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    346M  ASP*     3.1    44.7    +      -       -      -
    348M  CYS*     4.5     1.1    -      -       -      -
    391M  ILE*     1.3    76.9    -      -       -      +
    393M  LYS*     1.4    63.3    +      -       -      +
    394M  LEU*     4.1     5.3    +      -       -      +
    395M  HIS*     2.9    39.7    +      -       -      +
    396M  ALA*     3.1    18.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 393 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    339M  GLU*     2.5    39.7    +      -       -      -
    340M  PHE*     2.6    29.0    +      -       +      +
    342M  SER*     4.6    24.5    -      -       -      +
    346M  ASP*     3.9     5.6    +      -       -      +
    347M  SER      4.6     2.2    +      -       -      -
    348M  CYS*     4.3    17.4    -      -       +      +
    392M  SER*     1.4    73.1    -      -       -      +
    394M  LEU*     1.3    66.9    +      -       +      +
    396M  ALA*     3.3     3.9    +      -       -      +
    397M  ILE*     3.3    39.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 394 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    392M  SER*     3.4     7.2    +      -       -      +
    393M  LYS*     1.3    80.2    -      -       +      +
    395M  HIS*     1.3    61.8    +      -       +      +
    397M  ILE*     3.4    17.1    +      -       +      +
    398M  ASN*     3.0    36.8    +      -       -      +
    569M  LYS*     6.2     0.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 395 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    391M  ILE*     4.0    14.5    -      -       +      +
    392M  SER*     2.9    31.7    +      -       -      +
    394M  LEU*     1.3    81.9    -      -       +      +
    396M  ALA*     1.3    61.0    +      -       -      +
    398M  ASN*     4.0    10.3    -      -       -      +
    399M  ALA*     3.2    14.7    +      -       -      +
    516M  PRO*     5.9     6.3    +      -       +      +
    573M  TYR*     2.9    29.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 396 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    340M  PHE*     3.9    19.3    -      -       +      -
    348M  CYS*     3.7    28.9    -      -       -      -
    375M  LEU*     3.8    11.4    -      -       -      +
    391M  ILE*     3.6    16.7    -      -       +      +
    392M  SER      3.1     6.0    +      -       -      +
    393M  LYS      3.5     9.2    -      -       -      +
    395M  HIS*     1.3    72.7    -      -       -      +
    397M  ILE*     1.3    58.1    +      -       -      +
    399M  ALA*     3.3     4.4    +      -       -      +
    400M  ARG*     2.9    28.9    +      -       -      +
    576M  GLN*     5.7     0.2    +      -       -      -
----------------------------------------------------------
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Residues in contact with ILE 397 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    339M  GLU*     4.8     3.6    -      -       -      +
    340M  PHE*     3.9    18.2    -      -       +      -
    393M  LYS*     3.3    43.4    +      -       +      +
    394M  LEU*     3.4    19.0    +      -       +      +
    396M  ALA*     1.3    74.5    -      -       -      +
    398M  ASN*     1.4    66.3    +      -       -      +
    400M  ARG*     3.2    33.8    +      -       -      +
    401M  ASP*     3.1    29.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with ASN 398 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    394M  LEU*     3.0    23.2    +      -       -      +
    395M  HIS*     4.0    11.2    -      -       -      +
    397M  ILE*     1.4    80.1    -      -       -      +
    399M  ALA*     1.3    56.8    +      -       -      +
    401M  ASP*     3.7     8.2    +      -       -      +
    402M  ALA*     3.0    27.7    +      -       -      +
    405M  LYS*     5.8     0.2    -      -       -      -
    566M  GLU*     2.8    25.4    +      -       -      +
    569M  LYS*     2.7    45.3    +      -       +      +
    571M  THR      5.4     1.1    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 399 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    375M  LEU      5.5     0.2    -      -       -      +
    395M  HIS      3.2    16.9    +      -       -      +
    396M  ALA*     3.6     5.8    -      -       -      +
    397M  ILE      3.3     0.2    -      -       -      -
    398M  ASN*     1.3    76.4    -      -       -      +
    400M  ARG*     1.4    57.5    +      -       -      +
    402M  ALA*     3.3     8.3    +      -       -      +
    403M  LEU*     2.9    30.0    +      -       -      +
    571M  THR      4.5     4.0    -      -       -      +
    572M  VAL*     5.1     0.5    -      -       -      -
    573M  TYR*     3.4    40.8    -      -       +      +
    576M  GLN*     3.9    13.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 400 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    250M  VAL*     5.4     0.4    +      -       -      +
    286M  HIS*     2.9    32.2    +      -       -      -
    287M  TYR*     3.5    10.6    +      -       -      +
    335M  LEU*     3.6    36.4    -      -       +      +
    336M  GLY      3.2    19.8    +      -       -      -
    338M  VAL*     4.0    18.2    +      -       +      -
    340M  PHE*     4.4    16.1    -      -       +      -
    375M  LEU*     5.1    11.4    -      -       +      +
    396M  ALA      2.9    16.4    +      -       -      +
    397M  ILE*     3.2    28.3    +      -       -      +
    399M  ALA*     1.4    71.6    -      -       -      +
    401M  ASP*     1.3    91.7    +      -       -      +
    403M  LEU*     3.3     8.3    +      -       -      +
    404M  ALA*     3.0    27.0    +      -       -      +
    576M  GLN*     5.2     1.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 401 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    250M  VAL*     4.0    31.4    -      -       +      +
    287M  TYR*     3.3     8.3    +      -       -      -
    397M  ILE*     3.1    18.9    +      -       -      +
    398M  ASN*     3.8     9.8    +      -       -      +
    400M  ARG*     1.3   115.2    +      -       -      +
    402M  ALA*     1.3    59.5    +      -       -      +
    404M  ALA*     3.4     1.2    +      -       -      +
    405M  LYS*     2.9    41.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 402 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    398M  ASN      3.0    19.0    +      -       -      +
    399M  ALA      3.4     6.3    -      -       -      +
    401M  ASP*     1.3    75.5    -      -       -      +
    403M  LEU*     1.3    56.1    +      -       -      +
    405M  LYS*     3.7    12.2    +      -       -      +
    406M  HIS*     2.9    30.1    +      -       -      +
    570M  ASP*     3.9     7.7    -      -       -      +
    571M  THR      3.6    17.9    -      -       -      +
    572M  VAL*     3.6    30.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 403 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    335M  LEU*     4.2    20.4    -      -       +      -
    360M  PHE*     5.0     4.5    -      -       +      -
    371M  MET*     4.8    10.5    -      -       +      -
    375M  LEU*     5.1     4.0    -      -       +      -
    399M  ALA      2.9    13.8    +      -       -      +
    400M  ARG*     3.5     9.9    -      -       -      +
    402M  ALA*     1.3    73.3    -      -       -      +
    404M  ALA*     1.4    57.9    +      -       -      +
    406M  HIS*     3.2     5.3    +      -       +      +
    407M  ILE*     2.9    46.3    +      -       +      +
    572M  VAL*     4.0    22.3    -      -       +      +
    576M  GLN*     4.1    32.8    -      -       +      +
    577M  ILE*     4.5     9.0    -      -       +      -
    580M  LEU*     4.1    25.4    -      -       +      -
    593M  PHE*     6.4     0.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with ALA 404 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    249M  VAL*     4.2     5.0    -      -       +      +
    250M  VAL*     3.9     6.1    -      -       +      -
    287M  TYR*     3.5    41.7    -      -       +      +
    332M  ILE*     4.0    14.7    -      -       +      +
    335M  LEU*     4.3    10.4    -      -       +      +
    400M  ARG      3.0    10.2    +      -       -      +
    401M  ASP      3.4     4.2    +      -       -      +
    403M  LEU*     1.4    73.5    -      -       -      +
    405M  LYS*     1.3    62.2    +      -       -      +
    407M  ILE*     3.5     5.8    +      -       -      +
    408M  TYR*     3.2    24.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 405 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    246M  LYS*     3.3    46.9    -      -       +      +
    247M  SER*     4.3     2.4    -      -       -      +
    249M  VAL*     4.2    14.5    -      -       +      +
    250M  VAL*     4.1    21.5    -      -       +      -
    398M  ASN      5.8     0.2    -      -       -      -
    401M  ASP*     2.9    32.5    +      -       -      +
    402M  ALA*     3.8     5.4    -      -       -      +
    404M  ALA*     1.3    73.4    -      -       -      +
    406M  HIS*     1.4    63.8    +      -       -      +
    408M  TYR*     3.7     2.5    +      -       -      +
    409M  ALA*     3.2    23.7    +      -       -      +
    566M  GLU      5.0     1.4    +      -       -      -
    567M  LYS*     4.0    13.5    +      -       -      +
    569M  LYS      2.8    23.6    +      -       -      -
    570M  ASP*     2.6    32.2    +      -       -      +
    636M  VAL*     4.0     1.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 406 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    246M  LYS*     5.0     5.8    -      -       -      +
    402M  ALA      2.9    22.2    +      -       -      +
    403M  LEU*     3.6     9.4    -      -       +      +
    405M  LYS*     1.4    71.0    -      -       -      +
    407M  ILE*     1.3    64.2    +      -       +      +
    409M  ALA*     3.3     5.5    +      -       -      +
    410M  ASN*     2.9    41.0    +      -       -      +
    572M  VAL*     4.1    16.6    -      -       +      -
    577M  ILE*     3.7    33.0    -      -       +      +
    593M  PHE*     3.5    29.6    -      +       -      -
----------------------------------------------------------
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Residues in contact with ILE 407 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    328M  ILE*     3.5    32.3    -      -       +      -
    332M  ILE*     3.9    15.3    -      -       +      -
    335M  LEU*     4.7     8.7    -      -       +      -
    360M  PHE*     5.0     2.5    -      -       +      -
    364M  MET*     4.3    13.5    -      -       +      -
    403M  LEU*     2.9    38.8    +      -       +      +
    404M  ALA*     4.0     3.4    -      -       -      +
    406M  HIS*     1.3    73.5    -      -       +      +
    408M  TYR*     1.4    57.8    +      -       -      +
    410M  ASN*     3.4     1.6    +      -       -      +
    411M  LEU*     2.9    27.5    +      -       -      +
    580M  LEU*     3.8    24.5    -      -       +      -
    589M  LEU*     5.1     0.9    -      -       +      -
    592M  LEU*     4.4    10.1    -      -       +      +
    593M  PHE*     4.1    22.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with TYR 408 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    206M  ILE*     2.7    41.4    +      -       +      +
    244M  LEU*     4.6    11.4    -      -       +      -
    249M  VAL*     3.7    22.7    -      -       +      -
    259M  TYR*     3.3    33.8    -      +       -      +
    261M  ILE*     3.9     3.7    -      -       +      +
    262M  PHE*     3.5    33.7    -      +       -      -
    329M  LEU*     3.7    21.5    -      -       +      -
    332M  ILE*     4.1     8.4    -      -       +      +
    404M  ALA      3.2    17.5    +      -       -      +
    405M  LYS      3.9     4.0    -      -       -      +
    407M  ILE*     1.4    76.8    -      -       -      +
    409M  ALA*     1.4    56.7    +      -       -      +
    411M  LEU*     3.8     4.9    -      -       +      +
    412M  PHE*     2.9    44.3    +      +       +      +
----------------------------------------------------------
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Residues in contact with ALA 409 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    244M  LEU*     5.0     9.6    -      -       +      -
    246M  LYS*     4.3    18.8    -      -       +      +
    405M  LYS      3.2    18.1    +      -       -      +
    406M  HIS*     3.3     6.3    +      -       -      +
    408M  TYR*     1.4    76.9    -      -       -      +
    410M  ASN*     1.3    61.1    +      -       -      +
    412M  PHE*     3.5     6.5    -      -       -      +
    413M  ASN*     3.0    35.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with ASN 410 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    406M  HIS*     2.9    45.2    +      -       -      +
    407M  ILE      3.9     2.9    -      -       -      +
    409M  ALA*     1.3    78.4    -      -       -      +
    411M  LEU*     1.3    58.2    +      -       -      +
    413M  ASN*     3.4    12.3    +      -       -      +
    414M  TRP*     2.9    28.6    +      -       -      +
    592M  LEU*     2.8    43.7    +      -       +      +
    593M  PHE*     3.8     8.6    -      -       +      +
    594M  GLN      5.0     1.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 411 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    325M  ILE*     3.9    36.3    -      -       +      +
    328M  ILE*     3.8    35.9    -      -       +      -
    329M  LEU*     4.0    22.0    -      -       +      -
    332M  ILE*     5.1     2.2    -      -       +      -
    407M  ILE      2.9    21.3    +      -       -      +
    408M  TYR*     3.8     6.1    -      -       +      +
    410M  ASN*     1.3    71.4    -      -       -      +
    412M  PHE*     1.4    62.0    +      -       -      +
    414M  TRP*     3.3     6.7    +      -       +      +
    415M  ILE*     3.1    33.6    +      -       +      +
    588M  LEU*     4.1    13.5    -      -       +      -
    592M  LEU*     4.0    23.8    -      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 412 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    203M  MET*     4.2     8.1    -      -       +      -
    206M  ILE*     3.6    55.0    -      -       +      +
    207M  GLY*     4.0     3.6    -      -       -      -
    220M  PHE*     4.1    20.6    -      +       -      -
    241M  THR*     3.7    27.8    -      -       +      -
    244M  LEU*     3.8    43.5    -      -       +      -
    408M  TYR*     2.9    25.4    +      +       +      +
    409M  ALA*     3.5     6.5    -      -       -      +
    411M  LEU*     1.4    75.5    -      -       -      +
    413M  ASN*     1.4    72.6    +      -       -      +
    415M  ILE*     3.5     3.9    +      -       -      +
    416M  VAL*     3.2    26.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with ASN 413 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    241M  THR*     4.6     6.5    +      -       -      -
    409M  ALA*     3.0    21.9    +      -       -      +
    410M  ASN*     3.4    14.7    +      -       -      +
    412M  PHE*     1.4    83.2    -      -       -      +
    414M  TRP*     1.4    57.4    +      -       -      +
    416M  VAL*     3.1     9.2    +      -       -      +
    417M  ASP*     2.9    37.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with TRP 414 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    317M  ILE*     4.5     8.5    -      -       +      -
    321M  TYR*     3.3    46.9    -      +       +      -
    325M  ILE*     4.2    24.0    -      -       +      -
    410M  ASN      2.9    17.4    +      -       -      +
    411M  LEU*     3.3     7.4    +      -       +      +
    413M  ASN*     1.4    74.4    -      -       -      +
    415M  ILE*     1.3    73.4    +      -       +      +
    417M  ASP*     3.4    11.6    +      -       +      +
    418M  HIS*     3.0    68.7    +      +       +      +
    588M  LEU*     3.5    27.4    -      -       +      +
    591M  GLU*     4.1    24.6    +      -       +      +
    592M  LEU*     3.7    15.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 415 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    202M  ILE*     3.8    28.5    -      -       +      -
    203M  MET*     5.1     2.5    -      -       -      -
    206M  ILE*     3.9    35.7    -      -       +      -
    317M  ILE*     4.7     8.2    -      -       +      +
    325M  ILE*     4.0    40.8    -      -       +      -
    411M  LEU*     3.1    24.0    +      -       +      +
    412M  PHE*     3.8     4.9    -      -       -      +
    414M  TRP*     1.3    83.2    -      -       +      +
    416M  VAL*     1.4    58.2    +      -       -      +
    418M  HIS*     3.3     2.9    +      -       -      +
    419M  VAL*     2.8    41.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 416 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    203M  MET*     3.9    23.1    -      -       +      -
    206M  ILE*     5.1     0.7    -      -       +      -
    239M  MET*     3.8    24.9    -      -       +      +
    241M  THR*     3.8    33.4    -      -       +      +
    412M  PHE*     3.2    16.3    +      -       +      +
    413M  ASN*     3.1    10.6    +      -       -      +
    415M  ILE*     1.4    75.0    -      -       -      +
    417M  ASP*     1.4    62.5    +      -       -      +
    419M  VAL*     3.5     6.8    +      -       -      +
    420M  ASN*     2.9    43.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 417 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    413M  ASN*     2.9    29.4    +      -       -      +
    414M  TRP*     3.4    13.7    +      -       +      +
    416M  VAL*     1.4    72.1    -      -       -      +
    418M  HIS*     1.3    64.1    +      -       +      +
    420M  ASN*     3.3    13.6    +      -       -      +
    421M  LYS*     3.2    44.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 418 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    315M  LEU      4.5     8.7    -      -       -      +
    317M  ILE*     4.8    15.3    -      -       +      +
    321M  TYR*     5.6     6.0    -      +       -      -
    414M  TRP*     3.0    70.0    +      +       +      +
    415M  ILE*     4.1     2.5    -      -       -      +
    417M  ASP*     1.3    75.7    -      -       +      +
    419M  VAL*     1.4    64.2    +      -       -      +
    421M  LYS*     2.9    53.8    +      -       +      +
    422M  ALA      3.6     4.0    +      -       -      -
    591M  GLU*     5.7     0.2    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 419 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    199M  SER*     3.8    26.7    -      -       -      -
    202M  ILE*     4.2    24.0    -      -       +      -
    203M  MET*     5.4     3.8    -      -       -      -
    239M  MET*     3.8    18.6    -      -       +      -
    315M  LEU*     4.1    12.8    -      -       +      +
    317M  ILE*     4.7     7.2    -      -       +      -
    415M  ILE*     2.8    39.0    +      -       +      +
    416M  VAL*     3.8     7.0    -      -       -      +
    418M  HIS*     1.4    68.9    -      -       -      +
    420M  ASN*     1.3    63.3    +      -       -      +
    422M  ALA*     3.2    17.6    +      -       -      +
    423M  LEU*     3.5    16.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with ASN 420 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    237M  ALA      4.4     0.7    -      -       -      +
    238M  ASN*     3.5    18.0    +      -       -      +
    239M  MET*     2.7    51.1    +      -       -      +
    416M  VAL*     2.9    27.8    +      -       -      +
    417M  ASP*     3.3    15.6    +      -       -      +
    418M  HIS      3.3     0.2    -      -       -      -
    419M  VAL*     1.3    77.0    -      -       -      +
    421M  LYS*     1.3    56.5    +      -       +      +
    423M  LEU*     2.9     7.5    +      -       -      +
    424M  HIS*     2.8    47.5    +      -       +      -
----------------------------------------------------------
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Residues in contact with LYS 421 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    414M  TRP*     6.0     0.2    -      -       -      -
    417M  ASP*     3.2    28.8    +      -       -      +
    418M  HIS*     2.9    54.7    +      -       +      +
    420M  ASN*     1.3    75.1    -      -       +      +
    422M  ALA*     1.3    56.1    +      -       -      +
    424M  HIS*     4.3    22.3    +      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 422 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    195M  LYS*     4.8    13.7    -      -       -      +
    315M  LEU*     3.4    49.8    -      -       +      +
    418M  HIS      3.6     2.5    +      -       -      +
    419M  VAL      3.2    10.4    +      -       -      +
    420M  ASN      3.2     0.4    -      -       -      -
    421M  LYS*     1.3    76.0    -      -       -      +
    423M  LEU*     1.3    60.4    +      -       -      +
    424M  HIS      3.7     2.4    -      -       -      +
----------------------------------------------------------
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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