Contacts of the helix formed by residues 428 - 456 (chain D) in PDB entry 4P0S


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 428 (chain D).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    364D  VAL*     4.6     8.7    -      -       -      +
    365D  ASP      4.8     0.4    -      -       -      -
    366D  GLN*     4.5    20.2    -      -       -      -
    426D  VAL*     3.7     4.9    +      -       -      +
    427D  GLN*     1.3    79.7    -      -       -      +
    429D  TRP*     1.3    65.0    +      -       -      +
    430D  LYS*     3.4    14.5    +      -       -      +
    431D  GLU*     3.2    18.6    +      -       -      +
    432D  LEU*     3.1    18.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with TRP 429 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    263D  MET*     3.6    41.1    -      -       +      -
    264D  GLU*     3.6    41.4    -      -       +      +
    265D  GLY*     3.5    31.6    -      -       -      +
    268D  GLN*     4.5    14.2    -      -       +      +
    315D  LEU*     4.3     0.2    -      -       +      -
    317D  ARG*     4.3     7.2    -      -       -      -
    364D  VAL*     3.6    33.9    -      -       +      +
    366D  GLN*     3.6    24.7    +      -       -      +
    428D  SER*     1.3    72.5    -      -       -      +
    430D  LYS*     1.3    60.9    +      -       -      +
    432D  LEU*     3.1    39.4    +      -       +      +
    433D  ALA*     2.6    28.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 430 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    268D  GLN*     3.7    28.7    +      -       -      +
    272D  ALA*     6.1     2.4    -      -       -      +
    428D  SER*     3.2     9.1    +      -       -      +
    429D  TRP*     1.3    77.6    -      -       -      +
    431D  GLU*     1.3    52.8    +      -       -      +
    433D  ALA*     2.7    12.1    +      -       +      +
    434D  ASP*     2.6    62.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 431 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    401C  ARG*     5.7     5.0    -      -       -      -
    425D  ILE      4.1     2.9    -      -       -      +
    426D  VAL*     3.2    29.9    -      -       +      +
    427D  GLN*     2.7    47.9    +      -       -      +
    428D  SER*     3.2    16.1    +      -       -      +
    430D  LYS*     1.3    76.0    -      -       -      +
    432D  LEU*     1.3    65.0    +      -       -      +
    434D  ASP*     4.3     8.5    -      -       -      +
    435D  PHE*     3.0    29.3    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 432 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    265D  GLY      5.2     1.6    -      -       -      +
    269D  LEU*     3.7    33.7    -      -       +      -
    313D  LEU*     6.5     0.4    -      -       +      -
    315D  LEU*     3.4    29.6    -      -       +      -
    362D  VAL*     4.3    21.1    -      -       +      -
    364D  VAL*     5.0     4.5    -      -       +      -
    426D  VAL*     4.7    10.5    -      -       +      +
    428D  SER      3.1    10.2    +      -       -      +
    429D  TRP*     3.2    40.4    -      -       +      +
    430D  LYS      3.0     0.4    -      -       -      -
    431D  GLU*     1.3    82.4    -      -       -      +
    433D  ALA*     1.3    53.9    +      -       +      +
    435D  PHE*     4.6     3.6    -      -       +      +
    436D  THR*     2.2    37.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 433 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    268D  GLN*     4.0    28.5    -      -       +      +
    269D  LEU*     4.3    14.7    -      -       +      +
    272D  ALA*     4.4     9.5    -      -       +      +
    273D  LEU*     5.1     0.2    -      -       -      +
    429D  TRP      2.6    17.1    +      -       -      +
    430D  LYS*     2.7    19.1    +      -       +      +
    432D  LEU*     1.3    72.3    -      -       -      +
    434D  ASP*     1.3    59.3    +      -       -      +
    436D  THR*     3.0    24.2    -      -       -      +
    437D  CYS*     3.1    14.5    +      -       -      -
----------------------------------------------------------
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Residues in contact with ASP 434 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    381C  GLU*     4.7     9.9    -      -       -      +
    385C  LEU*     3.7    28.2    -      -       +      +
    272D  ALA*     5.6     1.9    -      -       -      +
    430D  LYS*     2.6    52.1    +      -       -      +
    431D  GLU*     3.9     5.9    +      -       -      +
    433D  ALA*     1.3    69.7    -      -       -      +
    435D  PHE*     1.3    64.7    +      -       -      +
    436D  THR      2.9     1.8    -      -       -      -
    437D  CYS*     3.0    22.9    +      -       -      +
    438D  ALA*     3.2     8.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 435 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    385C  LEU*     4.4    10.9    -      -       +      +
    389C  THR*     3.9    21.1    -      -       +      -
    392C  GLN*     3.4    21.3    -      -       -      -
    401C  ARG*     3.2    27.4    -      -       -      +
    313D  LEU*     4.0    12.3    -      -       +      -
    360D  SER*     5.4     1.1    -      -       -      -
    362D  VAL*     4.3    14.8    -      -       +      -
    424D  GLN*     3.0    30.3    -      -       -      -
    426D  VAL*     5.5     6.5    -      -       +      -
    431D  GLU*     3.0    19.0    +      -       +      +
    432D  LEU*     4.6     3.8    -      -       +      +
    434D  ASP*     1.3    73.3    -      -       -      +
    436D  THR*     1.3    56.1    +      -       -      +
    438D  ALA*     3.4     3.6    +      -       -      +
    439D  PHE*     2.7    71.1    +      +       -      +
----------------------------------------------------------
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Residues in contact with THR 436 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    256D  LEU*     6.2     0.7    -      -       +      -
    269D  LEU*     3.3    32.0    -      -       +      +
    273D  LEU*     3.7    13.4    -      -       +      +
    313D  LEU*     5.9     4.5    -      -       +      +
    432D  LEU*     2.2    30.9    +      -       -      +
    433D  ALA      3.0    13.0    -      -       -      -
    435D  PHE*     1.3    81.3    -      -       -      +
    437D  CYS*     1.3    63.2    +      -       -      +
    439D  PHE*     4.0     7.0    -      -       +      +
    440D  THR*     3.0    27.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with CYS 437 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    386C  GLN*     5.9     0.2    -      -       -      +
    272D  ALA*     3.6    45.8    -      -       -      -
    273D  LEU*     3.8     8.3    -      -       -      +
    276D  MET*     3.7    19.2    -      -       -      +
    433D  ALA      3.1    10.7    +      -       -      -
    434D  ASP*     3.0    17.4    +      -       -      +
    436D  THR*     1.3    75.0    -      -       -      +
    438D  ALA*     1.3    58.9    +      -       -      +
    440D  THR*     3.1     8.3    +      -       -      -
    441D  LYS*     3.0    22.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 438 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    385C  LEU*     4.4     6.5    -      -       +      +
    386C  GLN*     3.2    40.8    +      -       -      +
    389C  THR*     3.6    24.0    -      -       -      +
    434D  ASP      3.2     8.6    +      -       -      +
    435D  PHE*     3.6     6.3    -      -       -      +
    437D  CYS*     1.3    77.4    -      -       -      +
    439D  PHE*     1.3    55.5    +      -       -      +
    440D  THR      3.1     1.6    -      -       -      -
    441D  LYS*     3.0     1.3    +      -       -      -
    442D  ALA*     2.8    33.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 439 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    389C  THR*     3.6     9.2    -      -       +      +
    392C  GLN*     4.6     2.2    -      -       -      -
    393C  VAL*     3.4    28.5    -      -       +      -
    293D  TRP*     3.4    30.7    -      +       +      -
    311D  THR*     4.1    14.1    -      -       +      -
    313D  LEU*     3.4    24.9    -      -       +      -
    360D  SER*     3.6    27.4    -      -       -      -
    435D  PHE*     2.7    53.1    +      +       -      +
    436D  THR*     4.0     7.9    -      -       +      +
    437D  CYS      3.4     0.2    -      -       -      -
    438D  ALA*     1.3    72.2    -      -       -      +
    440D  THR*     1.3    57.0    -      -       -      +
    442D  ALA*     3.1     3.2    +      -       -      +
    443D  VAL*     2.8    57.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with THR 440 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    249D  LEU*     4.6     9.6    -      -       +      +
    252D  ILE*     5.0     6.9    -      -       +      +
    254D  VAL*     3.9    22.4    -      -       +      +
    273D  LEU*     3.9    14.2    -      -       -      +
    276D  MET*     3.7    21.5    -      -       +      -
    278D  CYS*     5.0     1.3    -      -       +      -
    293D  TRP*     3.8    24.2    +      -       +      +
    436D  THR*     3.0    14.1    +      -       -      +
    437D  CYS      3.1     9.8    +      -       -      -
    438D  ALA      3.1     0.6    -      -       -      -
    439D  PHE*     1.3    80.2    -      -       -      +
    441D  LYS*     1.3    60.4    +      -       -      +
    443D  VAL*     3.4     2.0    +      -       -      +
    444D  ALA*     3.2    23.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with LYS 441 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    382C  SER*     5.9     3.0    +      -       -      -
    386C  GLN*     3.1    42.0    +      -       +      +
    249D  LEU*     5.0    18.8    -      -       +      -
    276D  MET*     4.9    12.7    -      -       -      -
    437D  CYS      3.0    11.9    +      -       -      +
    438D  ALA*     3.0     2.3    +      -       -      +
    440D  THR*     1.3    76.9    -      -       -      +
    442D  ALA*     1.3    59.5    +      -       -      +
    444D  ALA*     3.8     5.2    -      -       -      +
    445D  GLU*     3.2    40.3    +      -       -      +
      2U    A      3.9    19.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 442 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    389C  THR*     4.2     8.5    -      -       +      -
    390C  ASN*     3.1    32.5    +      -       -      +
    393C  VAL*     4.5    14.8    -      -       +      -
    394C  ILE*     4.5     6.1    -      -       +      +
    438D  ALA      2.8    10.9    +      -       -      +
    439D  PHE*     3.1    13.0    +      -       -      +
    441D  LYS*     1.3    74.4    -      -       -      +
    443D  VAL*     1.3    54.0    +      -       -      +
    444D  ALA      3.1     1.8    -      -       -      -
    445D  GLU*     2.8     6.4    +      -       -      +
    446D  ALA*     2.8    34.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 443 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    393C  VAL*     5.1     7.4    -      -       +      -
    252D  ILE*     5.4     2.0    -      -       +      -
    293D  TRP*     3.4    57.4    -      -       +      +
    295D  ARG*     3.4    13.0    +      -       -      +
    309D  GLU*     3.9    16.5    -      -       +      +
    311D  THR*     4.8     7.2    -      -       +      +
    439D  PHE*     2.8    49.5    +      -       +      +
    440D  THR      3.9     3.4    -      -       -      +
    442D  ALA*     1.3    71.3    -      -       -      +
    444D  ALA*     1.3    62.3    +      -       -      +
    446D  ALA*     3.3    18.9    +      -       -      +
    447D  PRO*     3.5     0.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 444 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    243D  GLN*     5.2     2.6    -      -       -      +
    248D  CYS*     3.9    25.2    -      -       -      +
    249D  LEU*     4.7     9.4    -      -       +      -
    252D  ILE*     4.2    21.3    -      -       +      -
    295D  ARG*     3.5    18.3    +      -       -      +
    440D  THR      3.2    15.1    +      -       -      +
    441D  LYS*     3.8     7.6    -      -       -      +
    442D  ALA      3.1     0.2    -      -       -      -
    443D  VAL*     1.3    80.9    -      -       -      +
    445D  GLU*     1.3    58.7    +      -       -      +
    446D  ALA      3.1     3.9    +      -       -      -
    447D  PRO*     3.2    12.8    -      -       -      +
    448D  PHE*     4.6     2.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 445 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    386C  GLN*     4.9     1.4    +      -       -      +
    390C  ASN*     4.3    15.8    +      -       -      +
    394C  ILE*     4.8     7.6    -      -       +      +
    243D  GLN      5.4     0.2    -      -       -      +
    245D  PRO*     3.7    31.5    -      -       +      +
    248D  CYS*     4.4    15.7    -      -       -      -
    441D  LYS*     3.2    32.9    +      -       -      +
    442D  ALA*     2.8     8.0    +      -       -      +
    444D  ALA*     1.3    78.3    -      -       -      +
    446D  ALA*     1.3    67.1    +      -       -      +
    447D  PRO      3.5     0.4    -      -       -      -
    448D  PHE*     3.2    30.5    +      -       +      +
    449D  LYS*     3.3    26.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 446 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    393C  VAL*     5.0     8.7    -      -       +      -
    394C  ILE*     4.6    16.9    -      -       +      +
    309D  GLU*     4.7     4.9    -      -       -      +
    442D  ALA      2.8     9.1    +      -       -      +
    443D  VAL*     3.4    13.9    -      -       -      +
    444D  ALA      3.1     0.2    -      -       -      -
    445D  GLU*     1.3    78.8    -      -       -      +
    447D  PRO*     1.4    73.7    -      -       +      +
    448D  PHE      3.0     1.4    +      -       -      -
    449D  LYS*     3.3     1.6    +      -       -      +
    450D  LYS*     3.1    40.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with PRO 447 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    243D  GLN*     3.5    25.3    -      -       +      +
    295D  ARG*     3.1    42.2    -      -       -      +
    309D  GLU*     3.8    10.5    -      -       -      +
    443D  VAL      3.5     0.9    -      -       -      +
    444D  ALA      3.2     6.7    -      -       -      +
    446D  ALA*     1.4    93.5    -      -       +      +
    448D  PHE*     1.3    54.5    +      -       -      +
    450D  LYS*     3.9     8.3    -      -       +      -
    451D  LEU*     3.1    35.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 448 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    243D  GLN*     2.8    43.3    +      -       +      +
    244D  ARG*     4.8     2.2    -      -       +      -
    245D  PRO*     3.8    31.9    -      -       +      -
    445D  GLU*     3.2    23.2    +      -       +      +
    446D  ALA      3.0     1.0    +      -       -      -
    447D  PRO*     1.3    78.5    -      -       -      +
    449D  LYS*     1.3   103.4    +      -       +      +
    451D  LEU*     3.6     2.4    +      -       -      +
    452D  ARG*     3.3    55.3    +      -       +      +
----------------------------------------------------------
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Residues in contact with LYS 449 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    350C  ARG*     4.6    19.9    -      -       -      +
    390C  ASN*     4.8     8.1    -      -       -      +
    394C  ILE*     4.5    31.8    -      -       +      +
    445D  GLU*     3.3    25.7    +      -       -      +
    446D  ALA      4.4     1.3    -      -       -      +
    448D  PHE*     1.3   107.0    -      -       +      +
    450D  LYS*     1.3    62.7    +      -       -      +
    452D  ARG*     4.2     6.5    -      -       +      +
    453D  ASP*     2.8    42.6    +      -       -      +
      1U    G      4.1    19.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with LYS 450 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    393C  VAL      5.2     4.6    +      -       -      -
    394C  ILE*     4.0    34.6    +      -       +      +
    446D  ALA*     3.1    33.4    +      -       -      +
    447D  PRO*     4.0     6.5    -      -       +      +
    449D  LYS*     1.3    79.0    -      -       -      +
    451D  LEU*     1.3    67.5    +      -       +      +
    452D  ARG      3.4     0.2    +      -       -      -
    453D  ASP*     4.9     3.2    -      -       -      +
    454D  GLU*     3.2    33.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 451 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    240D  MET*     3.6    26.2    -      -       +      -
    243D  GLN*     3.6    27.1    -      -       -      +
    447D  PRO*     3.1    23.9    +      -       +      +
    448D  PHE      4.1     3.4    -      -       -      +
    450D  LYS*     1.3    87.1    -      -       +      +
    452D  ARG*     1.4    59.4    +      -       +      +
    454D  GLU*     3.8    15.0    -      -       -      +
    455D  THR*     3.5    21.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 452 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    350C  ARG*     5.8     6.7    -      -       -      +
    488C  GLU*     4.7    16.6    -      -       -      -
    448D  PHE*     3.3    47.5    +      -       +      +
    449D  LYS*     3.2    10.3    +      -       +      +
    451D  LEU*     1.4    74.8    -      -       +      +
    453D  ASP*     1.3    69.5    +      -       -      +
    454D  GLU      2.9     2.8    +      -       -      -
    455D  THR*     3.0     4.0    +      -       -      +
    456D  THR*     3.0    45.1    +      -       +      +
----------------------------------------------------------
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Residues in contact with ASP 453 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    354C  PHE*     6.5     1.8    -      -       +      -
    357C  LYS*     4.0    20.9    +      -       -      +
    394C  ILE*     5.6     3.3    -      -       -      +
    395C  ASP*     5.1     4.0    -      -       -      +
    449D  LYS*     2.8    31.0    +      -       -      +
    450D  LYS*     4.9     3.2    -      -       -      +
    452D  ARG*     1.3    74.8    -      -       -      +
    454D  GLU*     1.3    61.8    +      -       +      +
    456D  THR*     3.5    20.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 454 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    450D  LYS*     3.2    28.3    +      -       -      +
    451D  LEU*     3.8    18.1    -      -       -      +
    452D  ARG      2.9     1.6    -      -       -      -
    453D  ASP*     1.3    81.1    -      -       +      +
    455D  THR*     1.3    62.0    +      -       -      +
    456D  THR      4.0     1.7    -      -       -      +
    457D  PHE*     5.9     1.0    -      -       -      -
----------------------------------------------------------
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Residues in contact with THR 455 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    488C  GLU*     4.2    30.3    -      -       +      +
    491C  ALA*     4.6    10.7    -      -       +      +
    526C  GLY*     4.8    13.2    -      -       -      +
    451D  LEU      3.5    13.6    +      -       -      -
    452D  ARG*     3.0     8.0    +      -       -      -
    454D  GLU*     1.3    77.5    -      -       -      +
    456D  THR*     1.3    67.3    +      -       -      +
    457D  PHE*     3.8    17.0    -      -       -      -
----------------------------------------------------------
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Residues in contact with THR 456 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    487C  GLY*     4.3    15.0    +      -       -      -
    488C  GLU*     4.9     7.8    +      -       -      +
    452D  ARG*     3.0    45.6    +      -       +      +
    453D  ASP*     3.5    23.3    -      -       -      +
    454D  GLU      4.0     1.7    -      -       -      +
    455D  THR*     1.3    82.9    -      -       -      +
    457D  PHE*     1.3    71.8    +      -       -      +
    460D  CYS*     4.1    14.0    -      -       -      +
----------------------------------------------------------
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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