Contacts of the helix formed by residues 94 - 123 (chain M) in PDB entry 2BKC


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 THR 94 (chain M).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     93M  LYS*     1.3    78.6    -      -       -      +
     95M  MET*     1.3    68.2    +      -       +      +
     96M  ASP*     3.2    27.1    -      -       +      +
     97M  GLN*     3.2    27.2    +      -       +      +
     98M  LEU*     3.1    25.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with MET 95 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     34M  MET*     3.7    35.2    -      -       +      -
     35M  ARG      3.6    30.1    +      -       -      +
     36M  GLY*     5.7     1.3    -      -       -      -
     38M  ASN*     3.6    44.0    -      -       +      +
     39M  PHE*     3.7     6.3    -      -       -      +
     42M  LEU*     3.4    29.6    -      -       +      -
     94M  THR*     1.3    76.5    -      -       +      +
     96M  ASP*     1.3    62.3    +      -       -      +
     98M  LEU*     3.4     9.1    +      -       -      +
     99M  MET*     3.0    34.2    +      -       -      +
    149M  PHE*     4.5     6.3    -      -       +      -
     37X  HIS*     5.8     1.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASP 96 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     94M  THR*     3.2    13.6    -      -       +      +
     95M  MET*     1.3    80.6    -      -       -      +
     97M  GLN*     1.3    57.2    +      -       +      +
     99M  MET*     3.4     2.7    +      -       -      +
    100M  GLU*     3.0    36.7    +      -       -      +
    149M  PHE*     4.4     3.8    -      -       -      -
    150M  LEU*     3.7    30.4    -      -       +      +
     37X  HIS*     3.1    38.4    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLN 97 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     92M  PRO      4.7     1.9    -      -       -      +
     93M  LYS*     3.9    26.2    -      -       +      +
     94M  THR*     3.2    40.3    +      -       +      +
     96M  ASP*     1.3    74.0    -      -       +      +
     98M  LEU*     1.3    60.5    +      -       -      +
    100M  GLU*     3.2    11.8    +      -       -      +
    101M  ASP*     3.0    26.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 98 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     29M  GLN*     5.3     7.6    -      -       -      +
     30M  ILE*     3.7    42.6    -      -       +      +
     33M  TYR*     4.8     3.1    -      -       +      +
     34M  MET*     4.0    34.8    -      -       +      +
     35M  ARG      5.3     0.7    -      -       -      +
     89M  TYR*     4.0    27.1    -      -       +      -
     93M  LYS*     4.1    17.5    -      -       +      +
     94M  THR      3.1    23.1    +      -       -      +
     95M  MET*     3.7     7.4    -      -       -      +
     97M  GLN*     1.3    76.4    -      -       -      +
     99M  MET*     1.3    60.8    +      -       +      +
    101M  ASP*     3.2    10.0    +      -       +      +
    102M  LEU      3.0    21.5    +      -       -      -
----------------------------------------------------------
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Residues in contact with MET 99 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     30M  ILE*     3.8    29.6    -      -       +      -
     34M  MET*     4.9     0.4    -      -       +      -
     42M  LEU*     4.0    22.2    -      -       +      -
     46M  MET*     4.1    14.4    -      -       +      -
     95M  MET*     3.0    22.2    +      -       -      +
     96M  ASP      3.7     4.7    -      -       -      +
     97M  GLN      3.3     0.2    -      -       -      -
     98M  LEU*     1.3    74.9    -      -       +      +
    100M  GLU*     1.3    59.8    +      -       -      +
    102M  LEU*     3.4    10.5    +      -       +      +
    103M  VAL*     2.8    33.9    +      -       +      +
    146M  PHE*     3.6    34.8    -      -       +      +
    149M  PHE*     3.8    22.0    -      -       +      -
    150M  LEU*     3.9    18.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 100 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     96M  ASP*     3.0    22.1    +      -       -      +
     97M  GLN*     3.2    14.1    +      -       -      +
     99M  MET*     1.3    74.5    -      -       -      +
    101M  ASP*     1.3    63.3    +      -       -      +
    103M  VAL*     4.1     8.7    -      -       +      +
    104M  GLY*     3.1    19.9    +      -       -      -
    147M  LYS*     5.8     0.5    +      -       -      -
    150M  LEU*     3.6    21.4    -      -       +      +
    152M  LYS*     2.8    30.3    +      -       -      -
----------------------------------------------------------
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Residues in contact with ASP 101 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     26M  LYS*     2.7    39.5    +      -       -      +
     29M  GLN*     5.0     5.4    +      -       -      -
     30M  ILE*     5.1     3.7    -      -       +      +
     97M  GLN      3.0    12.8    +      -       -      +
     98M  LEU*     3.2    13.2    +      -       +      +
    100M  GLU*     1.3    75.5    -      -       -      +
    102M  LEU*     1.3    64.7    +      -       -      +
    104M  GLY*     3.5     0.9    +      -       -      -
    105M  THR*     3.1    28.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 102 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     23M  PHE*     3.4    37.2    -      -       +      -
     26M  LYS*     5.3     1.3    -      -       -      -
     27M  ILE*     4.6     7.4    -      -       +      -
     30M  ILE*     4.1    18.3    -      -       +      +
     46M  MET*     4.6     7.9    -      -       +      -
     49M  LEU*     3.8    25.8    -      -       +      -
     98M  LEU      3.0    12.1    +      -       -      +
     99M  MET*     3.4    13.5    -      -       +      +
    101M  ASP*     1.3    76.3    -      -       -      +
    103M  VAL*     1.3    57.3    +      -       -      +
    105M  THR*     3.1     7.6    +      -       -      -
    106M  LEU*     3.0    38.0    +      -       +      +
    146M  PHE*     3.9    37.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 103 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     99M  MET      2.8    21.6    +      -       -      +
    100M  GLU*     4.1     9.4    -      -       +      +
    101M  ASP      3.3     0.2    -      -       -      -
    102M  LEU*     1.3    71.9    -      -       +      +
    104M  GLY*     1.3    61.1    +      -       -      +
    106M  LEU*     3.1    12.7    +      -       +      +
    107M  GLU*     2.9    49.8    +      -       +      +
    143M  ILE*     4.5     6.4    -      -       +      +
    146M  PHE*     3.6    33.0    -      -       +      -
    147M  LYS*     4.1    31.0    -      -       +      +
    150M  LEU*     4.3     8.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLY 104 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    100M  GLU      3.1    16.7    +      -       -      -
    101M  ASP      4.0     1.6    -      -       -      -
    103M  VAL*     1.3    77.0    -      -       -      +
    105M  THR*     1.3    56.6    +      -       -      +
    107M  GLU*     3.3    16.7    +      -       -      +
    108M  LEU*     3.0    28.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 105 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     23M  PHE*     3.2    35.0    -      -       +      -
     26M  LYS*     3.4    17.9    -      -       -      -
     84M  VAL*     3.5    33.3    -      -       +      +
     85M  GLU      5.1     0.3    +      -       -      -
    101M  ASP*     3.1    14.8    +      -       -      -
    102M  LEU*     3.1    10.1    +      -       -      -
    104M  GLY*     1.3    76.5    -      -       -      +
    106M  LEU*     1.3    61.5    +      -       -      +
    108M  LEU*     3.4     7.4    +      -       +      +
    109M  LEU*     3.1    25.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 106 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     23M  PHE*     3.7    25.8    -      -       +      -
     49M  LEU*     5.4     1.8    -      -       +      -
     53M  PHE*     3.9    25.1    -      -       +      -
    102M  LEU*     3.0    35.8    +      -       +      +
    103M  VAL*     3.1    11.4    +      -       +      +
    105M  THR*     1.3    74.3    -      -       -      +
    107M  GLU*     1.3    59.8    +      -       -      +
    109M  LEU*     3.3     5.1    +      -       +      +
    110M  ARG*     3.0    29.5    +      -       -      +
    139M  ILE*     3.5    15.4    -      -       +      +
    142M  HIS*     3.8    31.0    -      -       +      +
    143M  ILE*     3.7    20.9    -      -       +      -
    146M  PHE*     4.4     3.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 107 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    103M  VAL*     2.9    21.7    +      -       -      +
    104M  GLY*     3.5    18.7    -      -       -      +
    106M  LEU*     1.3    76.5    -      -       -      +
    108M  LEU*     1.3    62.1    +      -       -      +
    110M  ARG*     3.2    31.0    +      -       -      +
    111M  ASP*     3.0    30.7    +      -       -      +
    143M  ILE*     3.9    12.4    -      -       +      +
    147M  LYS*     3.3    32.8    +      -       -      -
    154M  PRO      4.5     2.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 108 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     19M  ASN*     4.3     0.2    -      -       -      +
     83M  SER*     3.8    31.6    -      -       -      +
     84M  VAL*     3.9    25.6    -      -       +      +
    104M  GLY      3.0    16.3    +      -       -      +
    105M  THR*     3.6     5.6    -      -       -      +
    107M  GLU*     1.3    77.2    -      -       -      +
    109M  LEU*     1.3    65.8    +      -       +      +
    111M  ASP*     3.3     8.3    +      -       -      +
    112M  GLU*     2.9    57.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 109 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     16M  GLN*     3.5    22.9    -      -       -      +
     19M  ASN*     3.8    23.6    -      -       +      +
     20M  LEU*     4.3    16.8    -      -       +      -
     23M  PHE*     4.1    33.4    -      -       +      -
     53M  PHE*     4.6     8.7    -      -       +      -
     84M  VAL*     4.2     7.9    -      -       +      -
    105M  THR*     3.1    22.3    +      -       +      +
    106M  LEU*     3.8     7.9    -      -       +      +
    107M  GLU      3.3     0.2    -      -       -      -
    108M  LEU*     1.3    77.1    -      -       +      +
    110M  ARG*     1.3    60.5    +      -       -      +
    112M  GLU*     4.4     2.2    -      -       -      +
    113M  TYR*     2.9    37.3    +      -       +      +
    139M  ILE*     4.1    12.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 110 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106M  LEU      3.0    14.1    +      -       -      +
    107M  GLU*     3.2    36.1    +      -       -      +
    109M  LEU*     1.3    77.1    -      -       -      +
    111M  ASP*     1.3    81.9    +      -       -      +
    113M  TYR*     3.6     5.2    +      -       -      +
    114M  LYS*     3.0    28.0    +      -       +      +
    136M  LYS*     4.0    21.6    -      -       +      +
    139M  ILE*     4.0    15.9    -      -       +      +
    140M  ASP*     3.1    27.6    -      -       -      +
    143M  ILE*     4.2    19.9    -      -       +      +
    154M  PRO      5.2     0.4    +      -       -      -
    155M  LEU*     3.6    29.0    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 111 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    107M  GLU*     3.0    21.9    +      -       -      +
    108M  LEU*     3.7     6.4    -      -       -      +
    109M  LEU      3.2     0.2    -      -       -      -
    110M  ARG*     1.3   104.1    +      -       -      +
    112M  GLU*     1.3    63.4    +      -       +      +
    114M  LYS*     3.3    19.7    +      -       -      +
    115M  GLN*     3.4    14.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 112 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     12M  PHE*     3.3    12.3    -      -       +      -
     15M  HIS*     2.7    28.8    -      -       -      -
     16M  GLN*     2.9    17.0    +      -       -      +
     19M  ASN*     3.0     3.8    +      -       -      -
     83M  SER*     2.4    28.0    +      -       -      -
    108M  LEU*     2.9    34.9    +      -       +      +
    109M  LEU*     4.1     4.9    -      -       -      +
    111M  ASP*     1.3    75.3    -      -       +      +
    113M  TYR*     1.3    59.7    +      -       -      +
    115M  GLN*     3.1    20.0    +      -       -      +
    116M  GLY      2.9    22.3    +      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 113 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     12M  PHE*     3.8    10.1    -      +       -      -
     16M  GLN*     3.4    38.1    -      -       +      +
     20M  LEU*     3.4    25.4    -      -       +      +
     56M  GLN*     2.9    19.7    +      -       -      -
     60M  VAL*     4.7     1.9    -      -       +      +
    109M  LEU*     2.9    27.8    +      -       +      +
    110M  ARG      3.9     3.4    -      -       -      +
    112M  GLU*     1.3    74.6    -      -       -      +
    114M  LYS*     1.3    52.6    +      -       -      +
    116M  GLY*     3.1     0.9    +      -       -      -
    117M  ILE*     2.7    45.5    +      -       +      +
    132M  LEU*     3.9    21.3    -      -       +      +
    135M  PHE*     3.4    41.6    -      +       +      -
    136M  LYS*     4.2     8.5    -      -       +      -
    139M  ILE*     3.9    17.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with LYS 114 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    110M  ARG*     3.0    13.5    +      -       +      +
    111M  ASP*     3.3    13.9    -      -       -      +
    112M  GLU      3.1     0.4    -      -       -      -
    113M  TYR*     1.3    74.1    -      -       -      +
    115M  GLN*     1.3    64.3    -      -       +      +
    117M  ILE*     3.0    18.9    +      -       +      +
    118M  GLU*     3.0    42.6    +      -       -      +
    136M  LYS*     4.1    23.1    -      -       -      +
    124U  GLY*     3.6    18.7    +      -       -      +
    126U  ASP*     3.0    27.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 115 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     12M  PHE*     4.7     3.9    -      -       +      -
    111M  ASP*     3.4     9.8    +      -       -      +
    112M  GLU*     3.1    26.8    +      -       -      +
    114M  LYS*     1.3    77.3    -      -       +      +
    116M  GLY*     1.3    56.9    +      -       -      +
    118M  GLU*     3.5    20.1    +      -       -      +
    119M  LEU*     3.0    33.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLY 116 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     12M  PHE*     3.5    35.8    -      -       -      -
    112M  GLU      2.9    11.1    +      -       -      -
    113M  TYR      3.5     3.8    -      -       -      -
    115M  GLN*     1.3    75.9    -      -       -      +
    117M  ILE*     1.3    60.4    +      -       -      +
    119M  LEU*     3.7     4.1    -      -       -      +
    120M  THR*     2.9    33.3    +      -       -      +
    132M  LEU*     3.7     6.3    -      -       -      -
----------------------------------------------------------
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Residues in contact with ILE 117 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    113M  TYR      2.7    24.6    +      -       -      +
    114M  LYS*     3.0    13.7    +      -       +      +
    116M  GLY*     1.3    78.1    -      -       -      +
    118M  GLU*     1.3    63.6    +      -       -      +
    120M  THR*     3.1     9.5    +      -       -      -
    121M  ASP*     3.2     5.5    +      -       +      +
    129M  ASN*     2.8    33.0    +      -       -      +
    132M  LEU*     3.7    27.1    -      -       +      +
    133M  ILE*     3.7    28.0    -      -       +      -
    136M  LYS*     4.2    17.0    -      -       +      -
    126U  ASP*     3.3    38.1    -      -       +      +
    127U  VAL*     6.0     0.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 118 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    114M  LYS*     3.0    39.7    +      -       -      +
    115M  GLN*     3.7    22.8    -      -       -      +
    117M  ILE*     1.3    76.1    -      -       -      +
    119M  LEU*     1.3    61.8    +      -       -      +
    121M  ASP*     3.4     9.6    -      -       -      +
    122M  LYS*     3.1    28.9    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 119 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      7M  VAL*     3.7    37.5    -      -       +      +
      8M  ASP      4.4     0.2    -      -       -      +
      9M  THR*     4.0     8.5    -      -       -      +
     12M  PHE*     4.0    33.0    -      -       +      -
    115M  GLN*     3.0    20.1    +      -       +      +
    116M  GLY*     3.7     2.9    -      -       -      +
    118M  GLU*     1.3    77.4    -      -       -      +
    120M  THR*     1.3    58.0    +      -       +      +
    122M  LYS*     3.2     9.2    +      -       -      +
    123M  GLU*     3.0    62.1    +      -       +      +
----------------------------------------------------------
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Residues in contact with THR 120 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      9M  THR*     3.5    40.2    -      -       +      +
     12M  PHE*     5.7     2.9    -      -       +      -
    116M  GLY*     2.9    23.7    +      -       -      +
    117M  ILE*     3.1    11.4    +      -       -      -
    119M  LEU*     1.3    75.7    -      -       +      +
    121M  ASP*     1.3    60.3    +      -       -      +
    123M  GLU*     4.4     1.1    -      -       -      -
    124M  GLY*     3.1     8.0    +      -       -      -
    125M  ASP*     3.0    43.9    +      -       -      +
    128M  THR*     3.8    16.6    -      -       +      -
    129M  ASN*     3.3    17.9    -      -       -      +
    132M  LEU*     4.2     5.1    -      -       +      +
----------------------------------------------------------
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Residues in contact with ASP 121 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    117M  ILE*     3.2    18.5    +      -       +      +
    118M  GLU*     3.4     9.5    -      -       -      +
    120M  THR*     1.3    75.7    +      -       -      +
    122M  LYS*     1.3    63.1    +      -       -      +
    124M  GLY*     3.3    12.2    +      -       -      -
    126M  ASP*     6.2     0.2    -      -       -      -
    129M  ASN*     3.8    14.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 122 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    118M  GLU*     3.1    20.2    +      -       +      +
    119M  LEU*     3.2     9.6    +      -       -      +
    121M  ASP*     1.3    77.8    -      -       +      +
    123M  GLU*     1.3    60.9    +      -       +      +
    124M  GLY      3.2     1.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLU 123 (chain M). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      7M  VAL      4.2     1.0    -      -       -      +
      8M  ASP*     3.2    21.7    -      -       -      +
      9M  THR*     2.8    37.2    +      -       -      +
    119M  LEU*     3.0    33.5    +      -       +      +
    120M  THR*     3.6     2.4    +      -       -      +
    121M  ASP      3.4     0.2    -      -       -      -
    122M  LYS*     1.3    75.5    -      -       +      +
    124M  GLY*     1.3    62.6    +      -       -      +
    125M  ASP*     3.3     4.5    +      -       +      +
----------------------------------------------------------
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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