Contacts of the helix formed by residues 102 - 131 (chain B) in PDB entry 1O9R


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 LYS 102 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      2A  LYS*     5.4     2.0    -      -       -      +
     44B  LYS      3.5     7.0    -      -       -      -
    101B  TYR*     1.3    78.9    -      -       -      +
    103B  ILE*     1.3    66.8    +      -       -      +
    104B  HIS*     4.3     2.0    -      -       +      +
    105B  ASP*     3.0    37.2    +      -       -      +
    106B  HIS*     3.2    10.7    +      -       -      -
    160C  GLU*     2.4    49.4    +      -       +      +
    161C  LYS*     5.4     1.6    -      -       +      +
    162C  SER*     3.5    28.7    -      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 103 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     43B  LEU*     4.0    15.0    -      -       +      -
     44B  LYS      3.4    22.0    -      -       -      +
     45B  GLY      3.8    14.4    -      -       -      +
     46B  PRO*     5.3     0.2    -      -       +      -
     47B  GLN*     3.6    15.3    -      -       +      +
     48B  PHE*     3.5    35.7    -      -       -      +
     51B  VAL*     4.3    19.5    -      -       +      -
    101B  TYR      4.1     0.9    -      -       -      -
    102B  LYS*     1.3    71.1    -      -       -      +
    104B  HIS*     1.3    58.2    +      -       -      +
    106B  HIS*     3.2     7.8    +      -       -      +
    107B  LEU*     2.8    47.1    +      -       +      +
    162C  SER*     3.0    13.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 104 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    102B  LYS*     3.2     1.7    -      -       +      -
    103B  ILE*     1.3    74.2    -      -       -      +
    105B  ASP*     1.4    61.4    +      -       -      +
    107B  LEU*     3.3     9.1    +      -       +      +
    108B  ASP*     2.9    51.2    +      -       -      -
    158B  VAL*     3.9    28.4    -      -       +      +
    161B  LYS*     5.9     9.4    -      -       +      -
    162C  SER*     2.8    28.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 105 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    100B  ILE*     3.8    31.2    -      -       +      +
    101B  TYR      5.0     0.3    +      -       -      -
    102B  LYS*     3.0    36.8    +      -       +      +
    104B  HIS*     1.4    78.3    -      -       -      +
    106B  HIS*     1.4    63.6    +      -       -      +
    108B  ASP*     3.4    11.1    +      -       -      +
    109B  ALA*     3.1    22.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 106 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     38B  GLN*     4.5     1.6    -      -       +      -
     39B  ALA*     3.6    24.1    -      -       +      -
     42B  ASN*     3.6    19.7    +      -       +      -
     43B  LEU*     3.8    28.9    -      -       +      -
     96B  TYR*     2.8    31.0    +      +       -      +
     97B  PRO      5.1     0.7    -      -       -      -
    100B  ILE*     3.0    40.0    +      -       +      +
    101B  TYR*     3.4    22.9    -      -       -      -
    102B  LYS      3.2    10.9    +      -       -      -
    103B  ILE      3.6     5.4    -      -       -      +
    105B  ASP*     1.4    71.8    -      -       -      +
    107B  LEU*     1.3    62.7    +      -       +      +
    109B  ALA      3.2     0.9    +      -       -      -
    110B  LEU*     2.8    37.2    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 107 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     47B  GLN*     5.2     2.7    -      -       -      +
     51B  VAL*     4.5    17.0    -      -       +      -
    103B  ILE*     2.8    39.0    +      -       +      +
    104B  HIS*     3.6    10.1    -      -       +      +
    106B  HIS*     1.3    77.2    -      -       +      +
    108B  ASP*     1.3    57.9    +      -       -      +
    110B  LEU*     3.8     5.7    -      -       +      +
    111B  ILE*     2.8    38.9    +      -       +      +
    154B  LEU*     3.9    35.2    -      -       +      +
    157B  HIS*     3.8    32.5    -      -       +      +
    158B  VAL*     4.0    19.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASP 108 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    104B  HIS*     2.9    42.3    +      -       -      +
    105B  ASP*     3.8    10.2    -      -       -      +
    106B  HIS      3.2     0.2    -      -       -      -
    107B  LEU*     1.3    76.6    -      -       -      +
    109B  ALA*     1.3    61.4    +      -       -      +
    111B  ILE*     3.4    10.0    +      -       -      +
    112B  GLU*     3.1    23.2    +      -       -      +
    158B  VAL*     4.5     9.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 109 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     96B  TYR*     3.5    29.4    -      -       +      +
     97B  PRO*     4.5     7.2    -      -       +      -
    100B  ILE*     4.2     7.6    -      -       +      -
    105B  ASP      3.1    17.4    +      -       -      +
    108B  ASP*     1.3    73.0    -      -       -      +
    110B  LEU*     1.3    65.1    +      -       -      +
    112B  GLU*     3.5     3.1    +      -       -      -
    113B  ARG*     2.9    44.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 110 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     35B  VAL*     3.6    29.6    -      -       +      +
     36B  THR*     4.3     6.1    -      -       -      -
     39B  ALA*     3.8    25.4    -      -       +      -
     43B  LEU*     5.6     0.4    -      -       +      -
     51B  VAL*     5.8     0.7    -      -       +      -
     55B  LEU*     3.9    24.5    -      -       +      -
     96B  TYR*     3.8     6.1    -      -       -      +
    106B  HIS*     2.8    27.5    +      -       +      +
    107B  LEU*     3.8     7.9    -      -       +      +
    109B  ALA*     1.3    73.7    -      -       -      +
    111B  ILE*     1.3    57.7    +      -       -      +
    113B  ARG*     3.2     2.1    +      -       -      -
    114B  TYR*     2.7    56.5    +      -       +      -
    154B  LEU*     4.1    21.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 111 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    107B  LEU*     2.8    28.3    +      -       +      +
    108B  ASP*     3.8     8.3    -      -       -      +
    110B  LEU*     1.3    77.0    -      -       -      +
    112B  GLU*     1.3    59.1    +      -       -      +
    115B  GLY*     2.8    28.8    +      -       -      -
    151B  LEU*     3.9     5.0    -      -       +      +
    154B  LEU*     3.6    37.5    -      -       +      +
    155B  GLU*     3.8    31.4    -      -       +      +
    158B  VAL*     3.8    31.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 112 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     94B  LYS*     4.2    15.2    -      -       -      +
    108B  ASP      3.1    14.3    +      -       -      +
    109B  ALA*     3.7     7.8    -      -       -      +
    110B  LEU      3.2     0.2    -      -       -      -
    111B  ILE*     1.3    80.2    -      -       -      +
    113B  ARG*     1.3    84.5    +      -       -      +
    115B  GLY*     3.9     0.5    -      -       -      -
    116B  GLU*     3.1    54.1    +      -       +      +
----------------------------------------------------------
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Residues in contact with ARG 113 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     32B  LEU*     3.7    17.0    -      -       +      -
     35B  VAL*     4.2    13.0    -      -       -      -
     93B  LEU*     4.3    16.2    -      -       +      -
     94B  LYS*     3.0    30.7    +      -       -      +
     95B  ALA      3.1    24.9    +      -       -      -
     96B  TYR*     3.8    26.7    -      -       -      +
     97B  PRO*     4.0     5.0    -      -       -      +
    109B  ALA*     2.9    42.1    +      -       -      +
    110B  LEU*     3.2     3.9    +      -       -      +
    112B  GLU*     1.3    93.8    +      -       -      +
    114B  TYR*     1.3    67.4    +      -       -      +
    116B  GLU*     3.3    16.2    +      -       -      +
    117B  VAL*     3.0    28.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with TYR 114 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     32B  LEU*     3.5    32.8    -      -       +      -
     36B  THR*     2.7    30.4    +      -       +      +
     55B  LEU*     5.5     0.2    -      -       +      -
     58B  PHE*     3.3    32.5    -      +       +      +
     62B  LEU*     3.5     8.9    -      -       +      +
    110B  LEU*     2.7    42.7    +      -       +      +
    111B  ILE      4.2     1.3    -      -       -      +
    113B  ARG*     1.3    73.6    -      -       -      +
    115B  GLY*     1.4    58.7    +      -       -      +
    117B  VAL*     4.1     0.3    -      -       -      +
    118B  ALA*     2.8    32.2    +      -       -      +
    147B  LEU*     4.3    14.5    -      -       +      +
    150B  SER*     3.9    29.8    -      -       -      -
    151B  LEU*     4.2    13.6    -      -       +      +
    154B  LEU*     3.6    21.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLY 115 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    111B  ILE      2.8    19.0    +      -       -      -
    112B  GLU      3.9     0.9    -      -       -      -
    114B  TYR*     1.4    77.8    -      -       -      +
    116B  GLU*     1.3    62.2    +      -       -      +
    118B  ALA*     3.4     0.6    +      -       -      +
    119B  ASN*     2.9    36.4    +      -       -      -
    151B  LEU*     3.7    22.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 116 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     92B  LYS*     4.5     6.3    -      -       +      +
     93B  LEU*     3.5    29.7    -      -       +      +
     94B  LYS*     4.8     5.5    +      -       -      +
    112B  GLU*     3.1    37.7    +      -       -      +
    113B  ARG*     3.6    10.3    -      -       -      +
    114B  TYR      3.3     0.2    -      -       -      -
    115B  GLY*     1.3    77.5    -      -       -      +
    117B  VAL*     1.3    57.4    +      -       -      +
    119B  ASN*     3.3     5.1    +      -       -      +
    120B  MET*     2.9    34.4    +      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 117 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     28B  SER*     3.9    26.9    -      -       -      +
     29B  VAL*     4.1    22.4    -      -       +      +
     32B  LEU*     3.9    21.1    -      -       +      -
     62B  LEU*     5.4     0.4    -      -       +      -
     93B  LEU*     4.0    15.5    -      -       +      -
    113B  ARG      3.0    17.9    +      -       -      +
    114B  TYR      4.1     1.1    -      -       -      +
    116B  GLU*     1.3    71.6    -      -       -      +
    118B  ALA*     1.3    66.6    +      -       -      +
    120B  MET*     3.2     9.2    +      -       +      +
    121B  ILE*     2.9    26.2    +      -       +      +
    147B  LEU*     3.8    24.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with ALA 118 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    114B  TYR      2.8    22.7    +      -       -      +
    115B  GLY*     3.8     5.8    -      -       -      +
    117B  VAL*     1.3    71.7    -      -       -      +
    119B  ASN*     1.4    60.0    +      -       -      +
    121B  ILE*     3.4     2.8    +      -       -      +
    122B  ARG*     2.9    35.7    +      -       -      +
    144B  SER*     5.1     1.9    +      -       -      -
    147B  LEU*     4.0    29.5    -      -       +      +
    148B  ASP*     3.6    22.1    -      -       -      +
    151B  LEU*     4.5     7.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 119 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    115B  GLY*     2.9    26.7    +      -       -      +
    116B  GLU*     3.9     4.4    -      -       -      +
    118B  ALA*     1.4    74.6    -      -       -      +
    120B  MET*     1.3    65.0    +      -       -      +
    122B  ARG*     2.9    34.9    +      -       -      +
    123B  LYS*     3.1    23.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with MET 120 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     24B  GLU*     4.5    14.4    -      -       -      +
     25B  SER*     4.0    30.5    -      -       -      +
     28B  SER*     3.6    36.3    -      -       -      +
     92B  LYS*     4.0    25.8    -      -       +      +
     93B  LEU*     5.5     0.9    -      -       +      -
    116B  GLU*     2.9    22.8    +      -       +      +
    117B  VAL*     3.6    11.9    -      -       +      +
    119B  ASN*     1.3    77.9    -      -       -      +
    121B  ILE*     1.4    60.3    +      -       +      +
    123B  LYS*     3.3    10.1    +      -       +      +
    124B  ALA*     2.9    25.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 121 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     25B  SER*     3.6    30.5    -      -       -      +
     29B  VAL*     4.5    12.8    -      -       +      -
     69B  ILE*     4.5     4.5    -      -       +      -
    117B  VAL*     2.9    25.3    +      -       +      +
    118B  ALA      3.8     3.1    -      -       -      +
    120B  MET*     1.4    75.8    -      -       +      +
    122B  ARG*     1.3    65.6    +      -       -      +
    124B  ALA*     3.1    12.2    +      -       -      +
    125B  ILE*     3.1    13.5    +      -       -      +
    140B  PHE*     3.2    42.6    -      -       +      +
    143B  ALA*     4.1     6.5    -      -       +      -
    144B  SER*     3.6    19.3    -      -       -      +
    147B  LEU*     3.5    17.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 122 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    118B  ALA*     2.9    18.9    +      -       -      +
    119B  ASN*     2.9    37.5    +      -       -      +
    121B  ILE*     1.3    76.2    -      -       -      +
    123B  LYS*     1.3    63.2    +      -       -      +
    125B  ILE*     3.3    28.7    +      -       +      +
    126B  ASP*     3.6    11.7    +      -       -      +
    144B  SER*     4.2     9.1    +      -       -      +
    148B  ASP*     2.9    42.4    +      -       -      -
    151B  LEU*     5.4     3.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 123 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     24B  GLU*     5.8     4.0    -      -       -      -
    119B  ASN      3.1    13.3    +      -       -      +
    120B  MET*     3.6    10.5    -      -       -      +
    122B  ARG*     1.3    77.6    -      -       -      +
    124B  ALA*     1.3    56.0    +      -       -      +
    126B  ASP*     3.1     9.9    +      -       +      +
    127B  ASP*     2.7    58.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 124 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     21B  ILE*     3.7    24.2    -      -       +      +
     25B  SER*     4.1     4.7    -      -       -      +
    120B  MET      2.9    13.9    +      -       -      +
    121B  ILE*     3.1    10.7    +      -       -      +
    123B  LYS*     1.3    73.2    -      -       -      +
    125B  ILE*     1.3    65.2    +      -       -      +
    127B  ASP*     4.2     4.0    -      -       -      +
    128B  SER*     2.8    31.8    +      -       -      -
    140B  PHE*     3.7    27.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 125 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    121B  ILE      3.1    11.2    +      -       -      +
    122B  ARG*     3.5    16.8    -      -       +      +
    123B  LYS      3.2     0.2    -      -       -      -
    124B  ALA*     1.3    77.3    -      -       -      +
    126B  ASP*     1.3    68.6    -      -       -      +
    128B  SER*     3.4     3.4    +      -       -      -
    129B  ASP*     3.0    29.0    +      -       +      +
    137B  ALA*     3.7    11.3    -      -       +      +
    140B  PHE*     3.7    21.8    -      -       +      -
    141B  THR*     3.5    30.1    -      -       +      +
    144B  SER*     3.8    29.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 126 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    122B  ARG*     3.6    12.2    +      -       -      +
    123B  LYS*     3.1    10.3    +      -       +      +
    125B  ILE*     1.3    87.6    -      -       -      +
    127B  ASP*     1.3    63.8    +      -       -      +
    129B  ASP*     3.3     6.8    +      -       -      +
    130B  GLU*     2.9    31.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 127 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     17B  THR*     5.1     1.4    -      -       +      +
     21B  ILE*     3.7    24.2    -      -       +      +
    123B  LYS*     2.7    59.5    +      -       -      +
    124B  ALA*     4.2     3.8    +      -       -      +
    126B  ASP*     1.3    80.4    -      -       -      +
    128B  SER*     1.3    62.3    +      -       -      +
    130B  GLU*     3.5    16.8    +      -       -      +
    131B  ALA*     3.1    22.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 128 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     18B  VAL*     4.4    10.7    -      -       -      +
     21B  ILE*     4.2     7.5    -      -       -      +
    124B  ALA      2.8    23.5    +      -       -      -
    125B  ILE      3.6     3.6    -      -       -      -
    127B  ASP*     1.3    73.3    -      -       -      +
    129B  ASP*     1.3    65.4    +      -       -      +
    131B  ALA*     3.3     9.0    +      -       -      +
    132B  GLY      3.3     0.2    +      -       -      -
    133B  ASP*     3.1    26.7    +      -       -      +
    136B  THR*     3.5     9.6    -      -       -      +
    137B  ALA*     3.8    23.1    -      -       -      -
    140B  PHE*     3.3    21.3    -      -       -      -
----------------------------------------------------------
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Residues in contact with ASP 129 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    125B  ILE*     3.0    19.6    +      -       +      +
    126B  ASP*     3.8     6.7    -      -       -      +
    128B  SER*     1.3    75.9    -      -       -      +
    130B  GLU*     1.3    58.0    +      -       -      +
    132B  GLY*     2.9    21.4    +      -       -      +
    133B  ASP      4.6     2.9    -      -       -      +
    134B  PRO*     4.4    20.3    -      -       -      +
    137B  ALA*     4.0    10.6    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 130 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    126B  ASP      2.9    17.7    +      -       -      +
    127B  ASP*     3.8    19.1    -      -       -      +
    128B  SER      3.2     0.2    -      -       -      -
    129B  ASP*     1.3    77.9    +      -       -      +
    131B  ALA*     1.3    58.4    +      -       -      +
    132B  GLY*     3.4     1.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 131 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     14B  ALA*     3.3    27.6    -      -       +      +
     17B  THR*     4.2    19.3    -      -       +      -
     18B  VAL*     3.8    22.7    -      -       +      -
    127B  ASP      3.1    14.3    +      -       -      +
    128B  SER      3.6     9.2    -      -       -      +
    129B  ASP      3.2     0.4    -      -       -      -
    130B  GLU*     1.3    75.4    -      -       -      +
    132B  GLY*     1.3    57.8    +      -       -      +
----------------------------------------------------------
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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