Contacts of the helix formed by residues 36 - 59 (chain C) in PDB entry 4RVE


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 ASP 36 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     34C  GLY*     3.4     4.0    -      -       -      +
     35C  SER*     1.3    75.2    +      -       -      +
     37C  THR*     1.3    60.0    +      -       -      +
     38C  LYS*     2.8    66.3    +      -       -      +
     39C  VAL*     3.2    18.0    +      -       +      +
     40C  LEU*     2.9    22.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 37 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     35C  SER      2.8    11.6    +      -       -      +
     36C  ASP*     1.3    68.3    +      -       -      +
     38C  LYS*     1.3    64.3    +      -       -      +
     39C  VAL      3.0     2.9    -      -       -      -
     40C  LEU*     3.4     9.0    -      -       -      -
     41C  SER*     2.5    36.2    +      -       -      -
     93C  THR*     5.2     1.6    -      -       -      +
     95C  TYR*     5.1     0.2    -      -       +      -
    138C  TYR*     3.5    23.3    -      -       -      +
    140C  ARG*     4.7     5.8    -      -       -      +
      6F    A      5.5     2.5    +      -       -      +
      7F    T      3.5    30.2    +      -       -      -
      8F    C      3.4    35.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 38 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     36C  ASP*     2.8    34.2    +      -       -      +
     37C  THR*     1.3    81.3    +      -       -      +
     39C  VAL*     1.3    60.8    +      -       +      +
     41C  SER*     5.0     2.1    +      -       -      -
     42C  THR*     4.3    11.4    +      -       -      -
      6F    A      4.0    38.9    +      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 39 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     23C  ILE*     5.1     4.0    -      -       +      -
     33C  LEU*     4.1    26.7    -      -       +      -
     36C  ASP*     3.2    23.0    +      -       +      +
     38C  LYS*     1.3    76.0    -      -       +      +
     40C  LEU*     1.3    71.9    +      -       +      +
     41C  SER      3.2     1.8    -      -       -      -
     42C  THR*     2.8    22.3    +      -       +      -
     43C  ILE*     3.0    23.9    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 40 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     33C  LEU*     4.6     3.8    -      -       +      -
     34C  GLY      3.8    16.8    -      -       -      +
     35C  SER*     4.0    18.2    -      -       -      +
     36C  ASP      2.9    17.1    +      -       -      +
     37C  THR*     3.1     9.4    +      -       -      -
     39C  VAL*     1.3    83.0    -      -       +      +
     41C  SER*     1.3    64.3    +      -       -      +
     43C  ILE*     3.2    32.6    +      -       +      +
     44C  PHE*     3.6    14.7    +      -       +      -
     93C  THR*     5.6     0.4    -      -       -      +
    138C  TYR*     3.9    32.3    -      -       +      +
    162C  PRO*     4.4     7.4    -      -       +      +
    163C  TYR*     3.8    37.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with SER 41 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     37C  THR*     2.5    22.1    +      -       -      +
     38C  LYS*     5.0     2.3    +      -       -      -
     40C  LEU*     1.3    73.0    -      -       -      +
     42C  THR*     1.3    62.4    +      -       -      +
     44C  PHE*     3.3    12.6    +      -       -      +
     45C  GLU*     3.5    10.8    +      -       -      +
     91C  ILE*     5.1     2.3    -      -       -      +
     93C  THR*     4.0    15.9    +      -       -      +
      6F    A      3.1    29.0    +      -       -      -
      7F    T      3.1    26.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with THR 42 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     38C  LYS      4.3     9.1    +      -       -      -
     39C  VAL*     2.8    20.5    +      -       +      +
     41C  SER*     1.3    74.0    +      -       -      +
     43C  ILE*     1.3    64.9    +      -       +      +
     44C  PHE      3.0     0.2    -      -       -      -
     45C  GLU*     2.8    35.8    +      -       -      +
     46C  LEU*     3.0    28.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 43 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     20C  VAL*     4.1    21.8    -      -       +      -
     23C  ILE*     5.6     1.6    -      -       +      -
     33C  LEU*     3.2    35.7    -      -       +      -
     39C  VAL*     3.0    24.2    +      -       +      +
     40C  LEU*     3.2    17.9    +      -       +      +
     42C  THR*     1.3    84.0    -      -       +      +
     44C  PHE*     1.3    58.9    +      -       +      +
     45C  GLU      3.5     0.2    -      -       -      -
     46C  LEU*     3.8     9.0    -      -       +      +
     47C  PHE*     3.5    28.1    +      -       +      -
    163C  TYR*     3.9    25.8    -      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 44 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     18C  TYR*     4.8     1.1    -      +       +      -
     40C  LEU*     3.6    18.3    +      -       +      -
     41C  SER      3.3     7.5    +      -       -      +
     42C  THR      2.8     2.0    +      -       -      -
     43C  ILE*     1.3    74.2    -      -       +      +
     45C  GLU*     1.3    56.2    +      -       -      +
     46C  LEU      3.2     1.3    -      -       -      -
     47C  PHE*     3.4    31.7    -      +       -      +
     48C  SER*     2.6    31.9    +      -       -      -
     91C  ILE*     4.3     3.4    -      -       +      -
     93C  THR*     3.6    23.8    -      -       +      -
    136C  TYR*     3.8    32.0    +      +       +      -
    138C  TYR*     3.6    35.7    -      +       -      -
    163C  TYR*     4.5    18.6    -      +       -      -
    166C  VAL*     3.8    37.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 45 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     41C  SER      3.5     7.2    +      -       -      +
     42C  THR*     2.8    19.9    +      -       -      +
     44C  PHE*     1.3    75.4    -      -       -      +
     46C  LEU*     1.4    71.4    +      -       +      +
     47C  PHE      3.0     5.4    +      -       -      -
     48C  SER*     3.3     1.2    +      -       -      -
     49C  ARG*     3.3    26.6    +      -       -      +
     65C  GLU*     4.1    10.2    -      -       -      +
     74C  ASP*     3.9    39.6    -      -       -      +
     75C  PHE*     3.8    16.2    -      -       +      -
     91C  ILE*     3.7    20.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 46 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     42C  THR*     3.0    32.0    +      -       +      +
     43C  ILE*     3.8    10.5    -      -       +      +
     45C  GLU*     1.4    87.5    -      -       +      +
     47C  PHE*     1.3    63.0    +      -       +      +
     49C  ARG*     3.5    30.9    -      -       -      +
     50C  PRO*     3.7    12.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 47 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     18C  TYR*     3.2    55.6    -      +       +      -
     19C  ASP      3.6    17.0    -      -       -      -
     20C  VAL*     3.3    37.9    -      -       +      -
     43C  ILE*     3.5    14.8    -      -       +      -
     44C  PHE*     3.4    27.5    +      +       -      +
     46C  LEU*     1.3    83.1    -      -       +      +
     48C  SER*     1.3    60.4    +      -       -      +
     49C  ARG      3.2     2.0    -      -       -      -
     50C  PRO*     2.8    24.8    -      -       -      +
     51C  ILE*     3.9     9.7    -      -       -      +
    136C  TYR*     4.8     0.2    -      -       -      -
    163C  TYR*     4.0     8.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with SER 48 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     11C  LEU*     5.4     1.8    -      -       -      -
     44C  PHE      2.6    13.9    +      -       -      -
     45C  GLU      3.3     1.0    +      -       -      -
     47C  PHE*     1.3    76.5    -      -       -      +
     49C  ARG*     1.3    54.7    +      -       -      +
     50C  PRO      3.2     0.3    -      -       -      -
     51C  ILE*     3.3    10.1    +      -       -      +
     52C  ILE*     2.7    48.8    +      -       -      +
     91C  ILE*     3.2    27.5    -      -       -      +
    134C  ILE*     5.1     6.1    -      -       -      -
    136C  TYR*     2.6    26.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 49 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45C  GLU*     3.3    15.8    +      -       -      +
     46C  LEU*     3.5    36.1    -      -       -      +
     48C  SER*     1.3    75.8    -      -       -      +
     50C  PRO*     1.3    70.8    -      -       +      +
     52C  ILE*     4.6     0.4    -      -       -      +
     53C  ASN*     2.8    46.9    +      -       -      +
     65C  GLU*     2.3    51.4    +      -       -      +
     75C  PHE*     3.9    14.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with PRO 50 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     46C  LEU      3.7     6.5    -      -       -      +
     47C  PHE*     2.8    25.1    -      -       -      +
     49C  ARG*     1.3   100.6    -      -       +      +
     51C  ILE*     1.3    58.0    +      -       +      +
     53C  ASN*     3.7     3.2    -      -       +      +
     54C  LYS*     3.0    32.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 51 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      7C  LEU*     4.1     4.9    -      -       +      +
     10C  ALA*     3.6    37.0    -      -       +      +
     11C  LEU*     4.0    22.2    -      -       +      -
     16C  GLN*     5.4     9.2    -      -       +      -
     18C  TYR*     4.1    23.6    -      -       +      +
     47C  PHE      3.9    15.9    -      -       -      +
     48C  SER*     3.5     7.9    -      -       -      +
     50C  PRO*     1.3    80.6    -      -       +      +
     52C  ILE*     1.3    68.0    +      -       +      +
     53C  ASN      3.1     1.1    -      -       -      -
     54C  LYS*     4.4    12.1    -      -       -      +
     55C  ILE*     3.2    24.1    +      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 52 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      3C  LEU*     5.9     0.3    -      -       -      +
      7C  LEU*     4.7    14.7    -      -       +      +
     11C  LEU*     5.9     0.2    -      -       +      -
     48C  SER*     2.7    36.7    +      -       -      +
     49C  ARG*     4.2     3.1    -      -       -      +
     51C  ILE*     1.3    74.3    -      -       +      +
     53C  ASN*     1.3    61.7    +      -       -      +
     55C  ILE*     4.3     1.2    -      -       -      +
     56C  ALA*     2.9    29.2    +      -       +      +
     63C  VAL*     5.0     3.6    -      -       +      -
     75C  PHE*     3.5    44.6    -      -       +      -
     77C  LEU*     4.0    30.1    -      -       +      +
     89C  ILE*     4.0    22.7    -      -       +      -
     91C  ILE*     4.1     3.6    -      -       +      -
    134C  ILE*     4.6     9.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 53 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     49C  ARG*     2.8    47.4    +      -       -      +
     50C  PRO*     3.7     3.6    -      -       +      +
     52C  ILE*     1.3    79.9    -      -       -      +
     54C  LYS*     1.3    58.5    +      -       -      +
     56C  ALA*     3.3     5.8    +      -       -      +
     57C  GLU*     2.8    33.6    +      -       -      +
     63C  VAL*     3.8    32.2    -      -       -      +
     65C  GLU*     5.0     1.2    +      -       -      -
     75C  PHE*     4.7     2.8    -      -       -      -
----------------------------------------------------------
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Residues in contact with LYS 54 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     10C  ALA*     4.7     9.5    -      -       -      +
     50C  PRO      3.0    17.8    +      -       -      +
     51C  ILE*     3.3    11.7    +      -       -      +
     53C  ASN*     1.3    75.0    -      -       -      +
     55C  ILE*     1.3    83.7    +      -       +      +
     57C  GLU*     3.1    22.7    +      -       +      +
     58C  LYS*     3.4    13.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 55 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      3C  LEU*     4.0    15.5    -      -       +      +
      6C  ASP*     3.3    33.0    -      -       +      +
      7C  LEU*     4.1    11.7    -      -       +      +
     10C  ALA*     3.8    30.1    -      -       +      -
     51C  ILE      3.2    15.7    +      -       -      +
     52C  ILE      4.4     1.3    -      -       -      +
     54C  LYS*     1.3    87.7    -      -       +      +
     56C  ALA*     1.3    61.6    +      -       -      +
     58C  LYS*     3.3    30.3    +      -       -      +
     59C  HIS*     3.0    28.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 56 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      3C  LEU*     4.5     7.1    -      -       -      +
     52C  ILE      2.9    22.2    +      -       -      +
     53C  ASN      3.4     4.7    -      -       -      +
     54C  LYS      3.1     0.2    -      -       -      -
     55C  ILE*     1.3    77.9    -      -       -      +
     57C  GLU*     1.3    61.3    +      -       -      +
     59C  HIS      3.5     1.4    +      -       -      -
     60C  GLY      3.5     3.6    +      -       -      -
     61C  TYR*     3.2    32.0    +      -       +      +
     63C  VAL*     3.8    17.7    -      -       +      -
     77C  LEU*     3.3    28.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 57 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     57B  GLU      5.7     0.5    -      -       -      +
     58B  LYS      5.1     7.4    -      -       -      +
     53C  ASN*     2.8    13.6    +      -       -      +
     54C  LYS*     3.3    14.4    -      -       +      +
     56C  ALA*     1.3    78.4    -      -       -      +
     58C  LYS*     1.3    57.5    +      -       -      +
     60C  GLY*     3.0    21.8    +      -       -      -
     61C  TYR      4.8     4.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 58 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     57B  GLU*     4.9    24.1    -      -       +      +
     58B  LYS*     6.4     3.1    -      -       +      +
      6C  ASP*     4.4    12.7    +      -       -      +
     54C  LYS*     3.4    10.4    +      -       -      +
     55C  ILE*     3.3    43.1    +      -       -      +
     57C  GLU*     1.3    78.6    -      -       -      +
     59C  HIS*     1.3    70.1    +      -       +      +
     60C  GLY      3.3     0.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with HIS 59 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      2C  SER*     4.0     9.8    +      -       -      -
      3C  LEU*     3.9    22.2    -      -       +      +
      6C  ASP*     2.9    29.0    +      -       -      -
     55C  ILE*     3.0    34.5    +      -       +      +
     56C  ALA      3.5     1.8    +      -       -      -
     57C  GLU      3.2     0.8    -      -       -      -
     58C  LYS*     1.3    90.7    -      -       +      +
     60C  GLY*     1.3    63.3    +      -       -      +
     61C  TYR*     3.6    24.5    -      -       +      -
     79C  LYS*     3.2    21.2    +      -       -      -
----------------------------------------------------------
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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