Contacts of the helix formed by residues 126 - 154 (chain D) in PDB entry 2NS7


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 126 (chain D).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    121D  THR*     4.0     0.9    -      -       -      -
    124D  GLY      3.8     1.6    +      -       -      -
    125D  PHE*     1.3    76.2    -      -       -      +
    127D  LEU*     1.3    65.7    +      -       -      +
    128D  GLU*     3.8    13.1    +      -       -      +
    129D  ASN*     2.9    39.7    +      -       -      +
    130D  ALA*     2.9    22.3    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with LEU 127 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    169C  LEU*     3.3    35.4    -      -       +      +
    172C  GLN*     4.2     9.9    -      -       +      -
    173C  ALA*     3.5    42.6    -      -       +      +
    176C  LEU*     4.3    12.8    -      -       +      -
    117D  LEU*     4.3    11.9    -      -       +      -
    121D  THR*     3.8    19.1    -      -       +      +
    126D  SER*     1.3    73.1    -      -       -      +
    128D  GLU*     1.3    66.9    +      -       -      +
    130D  ALA*     3.7     0.9    -      -       -      +
    131D  LEU*     3.3    22.0    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLU 128 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    173C  ALA*     5.6     2.5    -      -       -      +
    176C  LEU*     3.3    42.4    -      -       +      +
    177C  PHE*     5.5     1.6    -      -       -      +
    180C  GLN*     3.7    27.0    +      -       +      +
    126D  SER*     4.2    10.2    -      -       -      +
    127D  LEU*     1.3    82.4    +      -       -      +
    129D  ASN*     1.3    59.3    +      -       -      +
    131D  LEU*     3.4     6.8    +      -       -      +
    132D  TYR*     2.9    50.7    +      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ASN 129 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188C  HIS*     2.9    36.8    +      -       +      +
    125D  PHE*     3.8    14.5    -      -       +      +
    126D  SER*     2.9    27.2    +      -       -      +
    128D  GLU*     1.3    75.8    -      -       -      +
    130D  ALA*     1.3    56.9    +      -       -      +
    132D  TYR*     3.7    10.7    -      -       -      +
    133D  ALA*     2.7    35.2    +      -       -      +
    200D  GLN*     5.8     6.1    -      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ALA 130 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    117D  LEU*     3.9    15.0    -      -       +      +
    120D  LEU*     3.7    26.5    -      -       +      +
    121D  THR*     4.3     8.7    -      -       +      -
    125D  PHE*     3.7    15.5    -      -       +      -
    126D  SER      2.9    17.9    +      -       -      +
    127D  LEU      3.7     5.4    -      -       -      +
    129D  ASN*     1.3    75.1    -      -       -      +
    131D  LEU*     1.3    57.2    +      -       -      +
    133D  ALA*     3.3     2.4    +      -       -      +
    134D  LEU*     3.1    33.8    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with LEU 131 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    170C  LEU*     5.5     0.2    -      -       +      -
    173C  ALA*     4.8    11.7    -      -       +      +
    174C  ILE*     4.5    20.9    -      -       +      -
    177C  PHE*     4.3    28.9    -      -       +      -
    185C  ALA*     6.1     0.2    -      -       +      -
    113D  LEU*     4.6    17.3    -      -       +      -
    117D  LEU*     3.7    19.0    -      -       +      +
    127D  LEU      3.3    12.2    +      -       -      +
    128D  GLU*     3.5     8.7    -      -       -      +
    130D  ALA*     1.3    76.4    -      -       -      +
    132D  TYR*     1.3    68.8    +      -       +      +
    134D  LEU*     3.5     4.4    +      -       +      +
    135D  SER*     2.7    47.3    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with TYR 132 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    177C  PHE*     4.1    18.0    -      +       +      -
    180C  GLN*     3.6    32.6    +      -       -      +
    181C  GLY      5.1     0.2    +      -       -      -
    184C  PRO*     4.0     9.7    -      -       +      +
    185C  ALA*     3.6    42.5    +      -       +      +
    188C  HIS*     3.7    43.0    +      +       +      +
    189C  GLY*     5.3     1.3    -      -       -      +
    128D  GLU*     2.9    37.2    +      -       +      +
    129D  ASN*     3.8    12.8    -      -       -      +
    130D  ALA      3.4     0.2    -      -       -      -
    131D  LEU*     1.3    81.5    -      -       +      +
    133D  ALA*     1.3    63.6    +      -       -      +
    135D  SER*     3.8     4.9    -      -       -      -
    136D  ALA*     3.0    26.7    +      -       -      +
    197D  PHE*     5.5     0.2    -      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with ALA 133 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188C  HIS*     5.8     0.9    -      -       +      -
     79D  LEU*     5.1     3.6    -      -       +      -
    120D  LEU*     4.7     5.6    -      -       +      -
    125D  PHE*     3.8    22.9    -      -       +      -
    129D  ASN      2.7    21.1    +      -       -      +
    130D  ALA*     3.5     5.6    -      -       -      +
    132D  TYR*     1.3    75.8    -      -       -      +
    134D  LEU*     1.3    61.7    +      -       -      +
    136D  ALA      3.4     0.2    +      -       -      -
    137D  VAL*     3.1    29.8    +      -       -      +
    197D  PHE*     3.7    30.6    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with LEU 134 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     78D  PHE*     4.6     4.3    -      -       +      -
     79D  LEU*     4.2    16.8    -      -       +      -
     82D  ASN*     5.0     6.5    -      -       -      +
    113D  LEU*     4.1    14.6    -      -       +      -
    116D  GLN*     3.9    38.1    -      -       +      +
    117D  LEU*     3.8    22.9    -      -       +      -
    120D  LEU*     3.8    20.2    -      -       +      -
    130D  ALA      3.1    18.9    +      -       -      +
    131D  LEU*     3.9     5.6    -      -       +      +
    133D  ALA*     1.3    74.9    -      -       -      +
    135D  SER*     1.3    60.0    +      -       -      +
    137D  VAL*     3.5     6.7    +      -       -      +
    138D  GLY*     3.0    24.4    +      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with SER 135 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    147C  GLU*     4.8     6.4    +      -       -      -
    185C  ALA*     5.8     5.8    -      -       -      -
    131D  LEU*     2.7    36.5    +      -       -      +
    132D  TYR*     3.8     8.0    -      -       -      -
    134D  LEU*     1.3    73.7    -      -       -      +
    136D  ALA*     1.3    60.2    +      -       -      +
    138D  GLY*     3.1     2.1    +      -       -      -
    139D  HIS*     2.9    54.3    +      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with ALA 136 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    140C  PHE*     3.7    31.8    -      -       +      -
    185C  ALA      5.9     0.2    -      -       -      +
    189C  GLY*     4.1    10.5    -      -       -      -
    132D  TYR      3.0    16.6    +      -       -      +
    133D  ALA      3.4     3.3    +      -       -      +
    135D  SER*     1.3    78.5    -      -       -      +
    137D  VAL*     1.3    57.7    +      -       -      +
    139D  HIS*     3.8     1.4    -      -       -      +
    140D  PHE*     2.9    29.8    +      -       -      +
    193D  LEU*     3.7    22.6    -      -       +      +
    197D  PHE*     4.5     4.5    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with VAL 137 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     79D  LEU*     4.4    21.3    -      -       +      +
     82D  ASN*     5.5     4.7    -      -       -      +
     83D  ALA*     3.7    31.2    -      -       +      +
    133D  ALA      3.1    18.8    +      -       -      +
    134D  LEU*     3.8     6.3    -      -       +      +
    135D  SER      3.2     0.2    -      -       -      -
    136D  ALA*     1.3    76.6    -      -       -      +
    138D  GLY*     1.3    58.9    +      -       -      +
    140D  PHE*     3.2     2.9    +      -       +      +
    141D  THR*     2.9    34.5    +      -       -      +
    190D  LEU*     4.4    12.1    -      -       +      -
    193D  LEU*     3.8    16.2    -      -       +      -
    194D  ILE*     6.0     0.7    -      -       +      -
    197D  PHE*     3.9    20.2    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with GLY 138 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     86D  PHE*     3.6    23.0    -      -       -      -
    134D  LEU      3.0    15.4    +      -       -      -
    135D  SER*     3.6     2.2    -      -       -      -
    137D  VAL*     1.3    76.8    -      -       -      +
    139D  HIS*     1.3    59.2    +      -       -      +
    141D  THR      3.3     1.2    +      -       -      -
    142D  LEU*     2.9    31.6    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with HIS 139 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    139C  HIS      3.5    10.0    -      -       -      +
    140C  PHE*     3.8    20.2    -      -       +      +
    143C  GLY*     3.6    23.2    -      -       -      -
    144C  SER*     3.6    23.8    +      -       -      -
    147C  GLU*     3.2    44.5    +      -       +      +
    185C  ALA*     6.4     2.5    -      -       +      -
    135D  SER*     2.9    34.1    +      -       -      +
    136D  ALA*     3.8     6.8    +      -       -      +
    138D  GLY*     1.3    74.4    -      -       -      +
    140D  PHE*     1.3    65.0    +      -       -      +
    142D  LEU*     4.7     6.7    -      -       +      -
    143D  GLY*     3.0    19.4    +      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with PHE 140 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    136C  ALA*     3.8    41.5    -      -       +      -
    139C  HIS*     3.9    16.4    -      -       +      +
    140C  PHE*     4.2    12.9    -      -       +      +
    193C  LEU*     5.5     2.0    -      -       +      -
    136D  ALA      2.9    19.1    +      -       -      +
    137D  VAL      3.6     3.4    -      -       -      +
    139D  HIS*     1.3    76.0    -      -       -      +
    141D  THR*     1.3    67.0    +      -       -      +
    143D  GLY      3.9     0.3    -      -       -      -
    144D  SER*     3.0    34.5    +      -       -      -
    185D  ALA      4.2     2.9    -      -       -      -
    186D  PHE*     3.4    50.7    -      +       -      -
    189D  GLY*     3.7    13.7    -      -       -      -
    190D  LEU*     3.6    19.1    -      -       +      -
    193D  LEU*     3.9    15.9    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with THR 141 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     83D  ALA*     3.7    21.4    -      -       -      +
     86D  PHE*     3.6    24.6    -      -       +      -
     87D  ARG*     3.7    31.4    -      -       +      +
     90D  LEU*     4.6     1.3    -      -       +      -
    137D  VAL*     2.9    18.3    +      -       -      +
    138D  GLY      3.7     3.4    -      -       -      -
    140D  PHE*     1.3    79.1    -      -       -      +
    142D  LEU*     1.3    56.2    +      -       -      +
    144D  SER*     3.4     7.0    -      -       -      -
    145D  VAL*     3.0    28.2    +      -       -      +
    186D  PHE*     3.6    18.8    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with LEU 142 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    143C  GLY*     5.2     8.3    -      -       -      +
    146C  LEU*     4.9     7.4    -      -       +      -
     86D  PHE*     4.3     7.8    -      -       +      -
     90D  LEU*     4.1    12.8    -      -       +      -
     97D  ALA*     3.6    37.7    -      -       +      +
    100D  HIS*     4.2    19.5    -      -       +      +
    101D  LEU*     3.8    23.6    -      -       +      -
    138D  GLY      2.9    21.0    +      -       -      +
    139D  HIS*     4.1     7.0    -      -       +      +
    141D  THR*     1.3    71.0    -      -       -      +
    143D  GLY*     1.3    65.7    +      -       -      +
    145D  VAL*     3.2     1.4    +      -       -      -
    146D  LEU*     2.9    37.6    +      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLY 143 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    139C  HIS*     3.8    36.9    -      -       -      -
    142C  LEU*     5.1     7.8    -      -       -      +
    143C  GLY*     4.8     5.5    -      -       -      -
    139D  HIS      3.0    11.2    +      -       -      -
    142D  LEU*     1.3    77.4    -      -       -      +
    144D  SER*     1.3    60.6    +      -       -      +
    146D  LEU*     3.4    13.7    +      -       -      +
    147D  GLU*     3.1    18.4    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with SER 144 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    139C  HIS*     3.6    25.0    +      -       -      -
     87D  ARG*     4.7     3.1    +      -       -      -
    140D  PHE*     3.0    24.6    +      -       -      -
    141D  THR*     3.4     9.5    +      -       -      -
    143D  GLY*     1.3    76.7    -      -       -      +
    145D  VAL*     1.3    59.8    +      -       -      +
    147D  GLU*     3.3     4.3    +      -       -      +
    148D  ASP*     3.1    25.6    +      -       -      +
    182D  ALA      5.4     0.9    +      -       -      -
    186D  PHE*     3.7    28.9    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with VAL 145 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     87D  ARG*     3.7    34.8    -      -       +      +
     90D  LEU*     3.9    22.4    -      -       +      -
     91D  LEU*     4.1    12.6    -      -       +      -
     97D  ALA*     3.7    14.4    -      -       +      -
    141D  THR      3.0    17.7    +      -       -      +
    142D  LEU      3.2     1.3    +      -       -      +
    144D  SER*     1.3    73.3    -      -       -      +
    146D  LEU*     1.3    58.9    +      -       -      +
    148D  ASP*     4.1     5.4    -      -       +      -
    149D  GLN*     2.7    63.7    +      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with LEU 146 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    101C  LEU*     4.2    22.5    -      -       +      +
    142C  LEU*     4.9     4.0    -      -       +      -
    146C  LEU*     3.8    29.6    -      -       +      -
     97D  ALA*     3.4    25.8    -      -       +      +
     98D  LYS*     3.6    33.1    -      -       +      +
    101D  LEU*     4.6     6.1    -      -       +      -
    142D  LEU*     2.9    35.2    +      -       +      +
    143D  GLY*     3.6     9.2    -      -       -      +
    145D  VAL*     1.3    77.0    -      -       -      +
    147D  GLU*     1.3    55.6    +      -       -      +
    149D  GLN*     4.8     2.6    -      -       -      +
    150D  GLU*     3.1    26.3    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLU 147 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    135C  SER*     5.1     2.7    -      -       -      -
    139C  HIS*     2.3    48.0    +      -       +      +
    143D  GLY      3.1     9.0    +      -       -      +
    144D  SER      3.9     3.8    -      -       -      +
    145D  VAL      3.1     0.2    -      -       -      -
    146D  LEU*     1.3    74.8    -      -       -      +
    148D  ASP*     1.3    61.8    +      -       -      +
    150D  GLU*     3.8     4.4    -      -       +      +
    151D  HIS*     2.9    55.5    +      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ASP 148 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     87D  ARG*     4.0    16.7    +      -       -      +
     91D  LEU*     3.5    21.4    -      -       +      +
    144D  SER*     3.1    13.6    +      -       -      +
    145D  VAL*     3.1    10.4    +      -       -      +
    147D  GLU*     1.3    74.6    -      -       -      +
    149D  GLN*     1.3    66.2    +      -       -      +
    151D  HIS*     3.0     8.9    +      -       -      +
    152D  GLN*     3.0    40.6    +      -       -      +
    182D  ALA*     4.2    24.2    -      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLN 149 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     90D  LEU      2.8    32.9    +      -       -      -
     91D  LEU*     3.6    12.0    +      -       +      +
     93D  HIS      3.5     8.1    +      -       -      -
     94D  ARG*     6.0     0.2    -      -       -      -
     95D  ASP*     3.5    16.6    -      -       -      +
     96D  GLY      3.1    15.0    +      -       -      +
     97D  ALA*     2.9    28.1    +      -       -      +
     98D  LYS*     4.3     1.2    +      -       -      +
    145D  VAL*     2.7    26.5    +      -       +      +
    146D  LEU*     4.8     2.4    -      -       -      +
    148D  ASP*     1.3    73.5    -      -       -      +
    150D  GLU*     1.3    60.6    +      -       -      +
    152D  GLN*     3.3    23.3    +      -       -      +
    153D  VAL*     3.3    25.0    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLU 150 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     49C  ARG*     3.5    23.7    +      -       -      -
    101C  LEU*     4.7     0.3    -      -       -      +
    102C  GLY*     3.5    33.4    +      -       -      +
     98D  LYS*     3.9    26.5    +      -       -      +
    146D  LEU      3.1    21.9    +      -       -      +
    147D  GLU*     3.8     7.0    -      -       +      +
    148D  ASP      3.2     0.6    -      -       -      -
    149D  GLN*     1.3    78.4    -      -       -      +
    151D  HIS*     1.3    61.5    +      -       +      +
    153D  VAL*     3.1    35.2    +      -       -      +
    154D  ALA*     3.4     6.1    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with HIS 151 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    105C  PRO*     6.5     1.1    -      -       +      -
    147D  GLU*     2.9    50.3    +      -       +      +
    148D  ASP*     3.0     8.7    +      -       -      +
    150D  GLU*     1.3    72.5    -      -       -      +
    152D  GLN*     1.3    61.4    +      -       -      +
    154D  ALA*     2.9    35.4    +      -       -      +
    155D  LYS*     4.2     9.0    +      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with GLN 152 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     91D  LEU*     4.4     9.7    -      -       -      +
    148D  ASP*     3.0    42.0    +      -       -      +
    149D  GLN*     3.5    19.4    +      -       -      +
    151D  HIS*     1.3    76.7    -      -       +      +
    153D  VAL*     1.3    62.6    +      -       +      +
    155D  LYS*     3.3    34.0    +      -       +      +
    156D  GLU      4.6     0.5    +      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with VAL 153 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     49C  ARG*     5.8     3.8    -      -       -      +
     94D  ARG*     6.3     2.2    -      -       +      +
     95D  ASP*     4.7    13.9    -      -       -      +
     98D  LYS*     6.3     1.1    -      -       -      +
    149D  GLN      3.3    14.6    +      -       -      +
    150D  GLU*     3.1    25.9    +      -       -      +
    151D  HIS      3.1     0.8    -      -       -      -
    152D  GLN*     1.3    74.0    -      -       +      +
    154D  ALA*     1.3    53.4    +      -       -      +
    155D  LYS      3.0     5.6    -      -       -      -
    156D  GLU*     2.9    44.6    +      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ALA 154 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    150D  GLU      3.4     4.9    +      -       -      +
    151D  HIS*     2.9    27.8    +      -       -      +
    153D  VAL*     1.3    75.1    -      -       -      +
    155D  LYS*     1.3    63.9    +      -       -      +
    156D  GLU      3.4     5.5    -      -       -      +
----------------------------------------------------------
 Back to top of page


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