Contacts of the strand formed by residues 294 - 317 (chain A) in PDB entry 1QFG


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 PHE 294 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    289A  GLU      3.7     0.2    -      -       -      -
    290A  PHE*     2.8    48.6    +      +       +      +
    291A  ASN*     3.0    23.7    +      -       -      +
    293A  THR*     1.3   104.4    -      -       +      +
    295A  THR*     1.3    55.7    +      -       -      +
    361A  LEU*     4.0    21.8    -      -       +      -
    362A  GLN      3.8     2.5    -      -       -      -
    363A  SER*     2.8    33.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with THR 295 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    287A  ASP*     5.2     5.2    -      -       +      -
    288A  HIS      3.2    20.9    -      -       -      +
    289A  GLU*     3.7    20.7    -      -       +      +
    290A  PHE*     4.9     0.4    -      -       -      -
    293A  THR      5.6     0.2    -      -       -      -
    294A  PHE*     1.3    76.5    +      -       -      +
    296A  VAL*     1.3    70.6    +      -       -      +
    297A  ARG*     4.3    13.6    +      -       -      +
    360A  GLN      4.2     0.2    -      -       -      +
    361A  LEU*     3.6     5.9    -      -       -      +
    362A  GLN*     2.9    57.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 296 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    286A  PHE*     4.5    10.8    -      -       +      -
    287A  ASP*     3.4     2.1    -      -       -      -
    288A  HIS*     2.6    58.4    +      -       +      +
    290A  PHE*     3.7    26.6    -      -       +      -
    295A  THR*     1.3    77.8    -      -       -      +
    297A  ARG*     1.3    70.5    +      -       -      +
    298A  GLN*     4.6     2.0    -      -       +      +
    359A  THR*     4.7    11.9    -      -       +      -
    360A  GLN      3.2    14.4    -      -       -      +
    361A  LEU*     4.9     7.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 297 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     38A  LYS      3.0    17.0    +      -       -      -
     39A  THR*     4.4     5.3    -      -       -      +
     40A  ASP*     4.8     4.6    -      -       -      +
    286A  PHE*     3.0    17.9    -      -       -      +
    287A  ASP*     4.0    12.2    -      -       +      +
    295A  THR*     4.3    10.7    -      -       -      +
    296A  VAL*     1.3    80.6    -      -       -      +
    298A  GLN*     1.3    56.7    +      -       -      +
    299A  ASN*     5.3    10.1    -      -       -      +
    359A  THR*     3.7     0.2    -      -       -      -
    360A  GLN*     2.7    84.9    +      -       +      +
    362A  GLN*     2.4    42.4    +      -       -      +
    375A  LEU*     4.2    10.7    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 298 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    284A  TYR*     2.7    31.4    +      -       -      +
    285A  SER*     3.9     0.3    -      -       -      -
    286A  PHE*     3.0    47.6    +      -       +      +
    296A  VAL*     5.5     1.6    -      -       +      -
    297A  ARG*     1.3    73.1    -      -       -      +
    299A  ASN*     1.3    62.6    +      -       -      +
    357A  VAL*     3.8    12.3    -      -       +      +
    358A  ASP      3.2    15.3    -      -       -      +
    359A  THR*     3.3    25.8    +      -       +      +
   1009A  FTT      3.3    27.5    -      -       -      +
   1100A  DDQ      3.4    17.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASN 299 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    107A  ASN*     3.7    19.7    +      -       +      +
    108A  GLY*     4.8     4.8    -      -       -      -
    109A  LEU*     3.5    24.7    -      -       +      +
    155A  ARG*     5.7     0.2    +      -       -      -
    284A  TYR      3.7     3.5    -      -       -      +
    285A  SER*     3.3    27.7    +      -       -      -
    286A  PHE      4.3     1.1    +      -       -      +
    297A  ARG*     5.3    12.0    -      -       -      +
    298A  GLN*     1.3    72.8    -      -       -      +
    300A  LEU*     1.3    60.7    +      -       -      +
    357A  VAL*     3.3     2.3    -      -       -      -
    358A  ASP*     2.9    34.7    +      -       +      +
    360A  GLN*     5.1    10.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 300 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    109A  LEU*     3.5     4.5    -      -       -      +
    283A  GLY*     3.0     7.9    -      -       -      -
    284A  TYR*     3.0    81.7    +      -       +      +
    298A  GLN      4.2     0.4    -      -       -      -
    299A  ASN*     1.3    76.1    -      -       -      +
    301A  ARG*     1.3    72.7    +      -       -      +
    355A  PHE*     3.6    23.8    -      -       +      -
    356A  SER      3.2     8.5    -      -       -      +
    357A  VAL*     3.3    26.9    -      -       +      -
   1009A  FTT      4.3     3.6    -      -       +      -
   1011A  FTT      4.4    18.2    -      -       +      -
   1012A  DAO      4.0    13.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 301 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106A  LEU*     2.6    42.5    +      -       -      +
    107A  ASN*     4.4     6.2    -      -       -      +
    109A  LEU*     3.1    38.0    +      -       +      +
    110A  LYS      3.4    19.6    +      -       -      -
    111A  LEU*     3.7    17.0    -      -       -      +
    232A  LEU      5.8     1.3    -      -       -      -
    281A  MET*     4.0    28.8    -      -       -      -
    282A  VAL      3.6    13.5    -      -       -      +
    283A  GLY*     4.5     1.3    -      -       -      -
    300A  LEU*     1.3    84.1    -      -       -      +
    302A  PHE*     1.3    72.6    -      -       -      +
    303A  ALA*     4.4     4.4    -      -       +      +
    354A  ASN*     3.8     1.5    +      -       -      +
    355A  PHE*     3.4     4.9    -      -       -      -
    356A  SER*     2.7    44.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 302 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    280A  LYS      4.1     0.2    -      -       -      +
    281A  MET*     3.2     6.1    -      -       -      +
    282A  VAL*     2.7    43.6    +      -       +      +
    300A  LEU*     4.8     0.4    -      -       -      +
    301A  ARG*     1.3    77.4    -      -       -      +
    303A  ALA*     1.3    76.9    +      -       -      +
    304A  GLU*     4.4     0.7    -      -       +      -
    353A  GLN*     3.8    16.4    -      -       +      -
    354A  ASN      3.4    12.8    -      -       -      -
    355A  PHE*     3.9    14.8    -      -       +      -
    382A  ARG*     4.8     0.2    -      -       -      -
   1011A  FTT      3.5    69.1    -      -       +      -
   1012A  DAO      4.5     1.8    -      -       -      -
   1013A  FTT      3.6    44.4    -      -       +      -
   1014A  MYR      3.7    13.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with ALA 303 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    111A  LEU*     5.8     2.0    -      -       +      -
    280A  LYS      3.3    11.0    -      -       -      +
    281A  MET*     4.2    15.9    -      -       +      -
    301A  ARG*     5.1     5.8    -      -       +      +
    302A  PHE*     1.3    84.7    -      -       -      +
    304A  GLU*     1.3    60.6    +      -       -      +
    305A  ASN*     4.0    20.2    -      -       -      +
    352A  LEU      3.7     0.4    -      -       -      +
    353A  GLN*     3.0     6.9    -      -       -      +
    354A  ASN*     2.7    49.9    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 304 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    278A  ASN*     4.2     1.0    -      -       -      +
    279A  GLU*     4.1     0.2    -      -       -      -
    280A  LYS*     2.9    34.4    +      -       +      +
    302A  PHE*     4.3     2.4    -      -       +      -
    303A  ALA*     1.3    73.8    -      -       -      +
    305A  ASN*     1.3    69.8    +      -       -      +
    306A  LYS*     4.2    19.6    +      -       -      +
    351A  LYS*     4.2    18.0    +      -       +      +
    352A  LEU      3.1     6.3    -      -       -      +
    353A  GLN*     2.5    30.3    +      -       -      +
   1013A  FTT      4.0     4.4    +      -       -      +
   1014A  MYR      4.0    30.5    -      -       +      +
   2001A  PO4      2.7    27.5    +      -       -      -
----------------------------------------------------------
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Residues in contact with ASN 305 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    111A  LEU*     5.7     2.0    -      -       -      +
    112A  GLN      5.6     1.2    +      -       -      -
    117A  ASN*     3.0    16.8    +      -       -      +
    118A  ASP      6.2     1.1    -      -       -      -
    119A  ALA*     4.1    16.6    -      -       +      +
    277A  ARG*     5.7     1.6    -      -       +      -
    278A  ASN*     3.1     9.4    -      -       -      +
    279A  GLU*     3.2    29.7    -      -       +      +
    280A  LYS      3.4     7.1    +      -       -      +
    281A  MET*     4.4     4.7    -      -       -      +
    303A  ALA*     4.0    18.1    -      -       -      +
    304A  GLU*     1.3    83.6    -      -       -      +
    306A  LYS*     1.3    64.8    +      -       -      +
    351A  LYS*     3.6     1.0    -      -       -      +
    352A  LEU*     2.9    47.9    +      -       +      +
    354A  ASN*     5.7     0.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 306 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    117A  ASN*     3.5     4.7    -      -       -      -
    277A  ARG*     3.2     6.6    -      -       -      +
    278A  ASN*     2.6    59.7    +      -       +      +
    280A  LYS*     4.3    16.1    -      -       -      +
    304A  GLU*     4.2    17.0    +      -       +      -
    305A  ASN*     1.3    79.9    -      -       -      +
    307A  THR*     1.3    63.3    +      -       -      +
    350A  GLU      3.4    14.1    -      -       -      +
    351A  LYS*     3.7    31.2    -      -       +      +
----------------------------------------------------------
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Residues in contact with THR 307 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     87A  TYR*     4.9     0.2    +      -       -      -
    116A  TYR*     3.4    35.6    +      -       +      +
    117A  ASN*     3.6    15.9    -      -       -      +
    275A  TYR*     3.9    14.9    -      -       -      -
    276A  SER      2.6    21.4    +      -       -      -
    277A  ARG*     4.3     8.2    -      -       -      +
    306A  LYS*     1.3    79.1    -      -       -      +
    308A  SER*     1.4    65.1    +      -       -      +
    309A  GLN*     5.4     0.3    +      -       -      -
    348A  ASP*     4.1     2.9    -      -       -      +
    349A  ASP*     3.5     2.9    +      -       -      +
    350A  GLU*     2.9    48.2    +      -       +      +
----------------------------------------------------------
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Residues in contact with SER 308 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    274A  THR*     6.4     0.7    -      -       -      -
    275A  TYR*     3.6     0.7    -      -       -      -
    276A  SER*     2.8    43.9    +      -       -      +
    307A  THR*     1.4    78.4    +      -       -      +
    309A  GLN*     1.3    65.8    +      -       -      +
    348A  ASP*     3.2    14.6    -      -       -      -
    349A  ASP*     3.7    15.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLN 309 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    116A  TYR*     3.5    31.1    +      -       -      +
    244A  TYR*     5.4     0.7    -      -       -      -
    274A  THR*     2.9    17.3    -      -       -      +
    275A  TYR*     3.0    47.6    +      -       +      -
    307A  THR*     5.4     0.4    +      -       -      -
    308A  SER*     1.3    78.5    -      -       -      +
    310A  ASN*     1.3    66.7    +      -       -      +
    311A  SER*     2.9    26.4    +      -       -      +
    346A  VAL*     3.8    19.3    -      -       +      +
    347A  VAL*     3.2     4.3    -      -       -      +
    348A  ASP*     2.8    43.5    +      -       +      +
   1108A  GOL      5.3     1.2    +      -       -      -
----------------------------------------------------------
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Residues in contact with ASN 310 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    272A  ASN      4.1     2.3    -      -       -      +
    273A  ASN*     3.2     5.5    -      -       -      -
    274A  THR*     2.7    48.7    +      -       +      +
    309A  GLN*     1.3    79.8    +      -       -      +
    311A  SER*     1.3    61.7    +      -       -      +
    346A  VAL      3.4     4.3    -      -       -      -
    347A  VAL*     3.4    27.7    -      -       -      +
    423A  PHE*     3.6    35.2    -      -       +      +
----------------------------------------------------------
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Residues in contact with SER 311 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    273A  ASN*     3.2    10.9    +      -       -      +
    274A  THR      4.0     2.8    +      -       -      -
    275A  TYR*     4.0     7.8    -      -       -      +
    309A  GLN*     2.9    32.1    +      -       -      +
    310A  ASN*     1.3    80.3    +      -       -      +
    312A  VAL*     1.3    63.9    +      -       -      +
    313A  TYR*     3.7     8.5    +      -       -      -
    345A  TYR*     3.0     4.2    -      -       -      -
    346A  VAL*     2.6    42.4    +      -       -      -
    423A  PHE*     3.4     6.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 312 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    268A  GLU*     3.4    24.3    -      -       -      +
    269A  GLY*     3.3     7.1    +      -       -      -
    270A  ALA*     3.5    15.7    -      -       +      +
    273A  ASN*     2.5    30.6    +      -       -      +
    311A  SER*     1.3    73.7    -      -       -      +
    313A  TYR*     1.3    62.7    +      -       -      +
    343A  ARG*     3.6    19.7    -      -       +      +
    344A  LYS      3.2    14.6    -      -       -      +
    345A  TYR*     3.6    12.1    -      -       +      -
    397A  VAL*     3.7    18.8    -      -       +      -
    421A  PHE*     4.2    20.6    -      -       +      -
    423A  PHE*     4.4     0.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with TYR 313 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    244A  TYR      5.5     1.8    -      -       -      +
    245A  GLY*     4.8     5.8    -      -       -      -
    246A  TRP*     3.8    36.8    -      +       +      +
    268A  GLU*     3.5     7.4    -      -       -      +
    311A  SER*     3.8     9.9    -      -       -      +
    312A  VAL*     1.3    76.7    -      -       -      +
    314A  GLY*     1.3    80.6    +      -       -      +
    315A  TYR*     4.0    12.0    -      +       -      -
    343A  ARG*     3.2     8.1    -      -       -      -
    344A  LYS*     2.8    54.6    +      -       +      +
    345A  TYR*     3.5    37.2    -      -       -      -
    346A  VAL*     4.5     4.3    -      -       +      -
    391A  PHE*     5.0     4.8    -      +       -      -
    392A  GLY      4.9     1.7    +      -       -      -
   1108A  GOL      3.3    45.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLY 314 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    246A  TRP*     3.5    34.6    +      -       -      +
    268A  GLU*     2.8    23.4    +      -       -      +
    313A  TYR*     1.3    92.4    -      -       -      +
    315A  TYR*     1.3    57.0    -      -       -      -
    316A  GLY      3.8     1.6    -      -       -      -
    341A  LEU*     4.5     5.6    -      -       -      -
    342A  ALA      3.8     5.8    -      -       -      -
    343A  ARG*     4.3     4.7    -      -       -      -
    707A  TYR      4.9     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 315 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    246A  TRP*     3.7    31.4    -      +       -      -
    313A  TYR*     4.0    12.8    -      +       -      -
    314A  GLY*     1.3    71.9    -      -       -      -
    316A  GLY*     1.3    62.6    +      -       -      +
    322A  ALA*     3.9    28.7    -      -       +      +
    323A  ASN*     3.0    34.2    +      -       -      -
    342A  ALA*     2.7    21.9    +      -       +      +
    344A  LYS*     3.4    42.5    +      -       +      -
    707A  TYR*     3.7    30.7    +      +       -      +
   1108A  GOL      5.8     0.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with GLY 316 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    248A  PRO*     4.0    12.2    -      -       -      +
    314A  GLY      3.8     0.8    -      -       -      -
    315A  TYR*     1.3    78.5    -      -       -      +
    317A  VAL*     1.3    62.2    +      -       -      -
    320A  ASP*     4.6     3.8    -      -       -      -
    323A  ASN*     4.2     0.4    -      -       -      -
    341A  LEU*     2.9    14.7    -      -       -      +
    342A  ALA*     2.7    32.6    +      -       -      +
    706A  THR      5.3     0.2    -      -       -      -
    707A  TYR*     3.5    21.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 317 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    248A  PRO*     4.1     6.1    -      -       +      +
    250A  GLU*     3.5    47.3    -      -       +      +
    256A  LEU*     5.1     0.2    -      -       +      -
    316A  GLY*     1.3    74.1    -      -       -      -
    318A  CYS*     1.3    57.5    +      -       -      +
    319A  SER*     3.0    16.8    -      -       -      +
    320A  ASP*     2.9    23.1    +      -       +      +
    323A  ASN*     2.9    16.4    +      -       -      -
    337A  LYS      3.8     7.0    -      -       -      +
    338A  GLY*     4.0    15.5    -      -       -      +
    340A  TYR      2.8    21.3    -      -       -      +
    402A  LEU*     3.9    18.8    -      -       +      -
----------------------------------------------------------
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A short description of the analytical approach
The contact analysis used in this page is based upon the approach developed in: Sobolev V., Wade R.C., Vriend G. and Edelman M. PROTEINS (1996) 25, 120-129. Contact legitimacy depends on the hydrophobic-hydrophilic properties of the contacting atoms. In order to define it, for each inter-atomic contact, eight atom classes have been introduced:


   I  Hydrophilic      - N and O that can donate and accept hydrogen bonds
                         (e.g., oxygen of hydroxyl group of Ser. or Thr)
  II  Acceptor         - N or O that can only accept a hydrogen bond
 III  Donor            - N that can only donate a hydrogen bond
  IV  Hydrophobic      - Cl, Br, I and all C atoms that are not in
                         aromatic rings and do not have a covalent bond to
                         a N or O atom
   V  Aromatic         - C in aromatic rings irrespective of any other 
                         bonds formed by the atom
  VI  Neutral          - C atoms that have a covalent bond to at least one
                         atom of class I or two or more atoms from class II
                         or III; atoms; S, F, P, and metal atoms in all cases
 VII  Neutral-donor    - C atoms that have a covalent bond with only one
                         atom of class III
VIII  Neutral-acceptor - C atoms that have a covalent bond with only 
                         one atom of class II
For each pair of contacts the state of legitimacy is shown below:

Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
  Atomic class           I  II  III   IV   V   VI  VII  VIII
------------------------------------------------------------
   I  (Hydrophilic)      +   +    +    -   +   +    +    +
  II  (Acceptor)         +   -    +    -   +   +    +    -
 III  (Donor)            +   +    -    -   +   +    -    +
  IV  (Hydrophobic)      -   -    -    +   +   +    +    +
   V  (Aromatic)         +   +    +    +   +   +    +    +
  VI  (Neutral)          +   +    +    +   +   +    +    +
 VII  (Neutral-donor)    +   +    -    +   +   +    -    +
VIII  (Neutral-acceptor) +   -    +    +   +   +    +    -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically assigned based on the atomic coordinates. However, in three cases (see below) the automatic assignment is currently ambiguous. In these cases, the user is advised to manually analyse the full list of contacts using LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are 
   considered "aromatic" (Class V) if the ring is approximately
   planar, and "hydrophobic" (Class IV) or "neutral" (Classes
   VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
   "hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
   "carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).

Please E-mail any questions and/or suggestions concerning this page to Vladimir.Sobolev@weizmann.ac.il