Contacts of the strand formed by residues 423 - 445 (chain B) in PDB entry 2C10


Residue contacts within the protein are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332). A short description of the analytical approach is given at the end of the page.
For CSU analysis of other PDB entry

Note:
Non-standard 3 letter residue codes indicate a heterogroup. To identify and analyse, use LPC software

Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB   - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC   - hydrophobic-hydrophilic contact (destabilizing contact)
+/-  - indicates presence/absence of a specific contacts
*    - indicates residues forming contacts  by their side chain
       (including CA atoms)
Residues in contact with LYS 423 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     65B  ARG*     3.8     5.4    +      -       -      +
    414B  HIS*     3.3     8.5    -      -       -      +
    415B  PHE*     2.8    60.7    +      -       +      -
    417B  LEU      5.4     1.0    +      -       -      +
    419B  SER*     3.4    31.8    +      -       -      +
    421B  ALA*     3.7     5.3    +      -       -      +
    422B  PRO*     1.3    77.8    -      -       -      +
    424B  THR*     1.3    67.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 424 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     65B  ARG*     2.7    27.8    +      -       -      +
    412B  ASP*     4.1    16.2    -      -       +      +
    413B  TRP      3.3     6.7    -      -       -      +
    414B  HIS*     3.2    15.5    +      -       +      +
    415B  PHE*     3.8     4.4    -      -       -      -
    423B  LYS*     1.3    76.7    -      -       -      +
    425B  ILE*     1.3    80.6    +      -       -      +
    426B  ARG*     3.9    19.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 425 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    392B  GLY      4.2     2.9    -      -       -      +
    393B  LYS      4.6     6.5    -      -       -      +
    395B  THR*     3.4    31.4    -      -       +      +
    396B  THR      4.0     0.7    -      -       -      -
    397B  PRO*     3.9    20.4    -      -       +      -
    412B  ASP*     3.4     1.4    -      -       -      -
    413B  TRP*     2.7    73.0    +      -       +      +
    415B  PHE*     3.7    20.8    -      -       +      -
    424B  THR*     1.3    74.2    -      -       -      +
    426B  ARG*     1.3    70.3    +      -       -      +
    428B  ALA*     3.8    20.9    -      -       +      +
----------------------------------------------------------
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Residues in contact with ARG 426 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    397B  PRO*     3.3    22.3    -      -       -      +
    412B  ASP*     3.4    21.3    +      -       -      +
    424B  THR*     3.9    12.8    +      -       +      +
    425B  ILE*     1.3    71.7    -      -       -      +
    427B  ASP*     1.3    81.6    +      -       -      +
    428B  ALA      3.4     0.5    +      -       -      -
    756B  SER*     4.4    16.2    +      -       -      -
    757B  HIS*     4.2     3.8    +      -       -      +
    758B  GLY*     3.3    47.4    +      -       -      +
    759B  GLY*     5.9     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with ASP 427 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    397B  PRO*     5.1     1.1    -      -       +      +
    398B  LEU*     3.0    43.9    +      -       -      +
    400B  ARG*     4.7     8.3    +      -       -      -
    410B  TYR*     3.3    35.3    -      -       +      +
    411B  VAL      3.6     8.1    -      -       -      -
    412B  ASP*     3.0    17.2    +      -       -      +
    425B  ILE      3.7     0.2    +      -       -      -
    426B  ARG*     1.3    83.9    +      -       -      +
    428B  ALA*     1.3    62.7    +      -       -      +
    429B  PHE      3.3     3.6    -      -       -      -
    756B  SER*     4.6    11.4    +      -       -      +
    757B  HIS*     5.3     1.2    -      -       -      -
    758B  GLY      4.9     8.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 428 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    341B  LEU*     5.0     0.9    -      -       +      -
    395B  THR*     3.7    22.3    -      -       +      +
    396B  THR      4.2     8.6    -      -       -      +
    398B  LEU*     3.6     7.7    -      -       -      +
    411B  VAL      2.8     6.3    +      -       -      +
    413B  TRP*     3.6    31.4    -      -       +      -
    425B  ILE*     3.8    11.6    +      -       +      +
    426B  ARG      3.3     2.2    -      -       -      -
    427B  ASP*     1.3    75.2    -      -       -      +
    429B  PHE*     1.3    62.7    +      -       +      +
    464B  SER*     3.1    24.8    -      -       -      -
    465B  MET      4.4     0.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with PHE 429 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     62B  ASP*     4.8     0.2    -      -       -      -
    339B  PHE*     3.8    33.0    -      +       +      -
    340B  GLY*     3.7    25.6    -      -       -      -
    341B  LEU*     3.7    38.6    -      -       +      -
    347B  PRO*     5.8     1.3    -      -       +      -
    398B  LEU*     3.4     7.3    -      -       -      +
    410B  TYR*     3.4     7.1    -      -       -      +
    411B  VAL*     2.9    49.4    +      -       +      +
    412B  ASP      4.1     6.3    -      -       -      -
    413B  TRP*     3.8    27.6    -      +       +      -
    427B  ASP      4.1     0.7    -      -       -      -
    428B  ALA*     1.3    79.4    -      -       +      +
    430B  CYS*     1.3    63.7    +      -       -      +
    431B  VAL*     5.3     2.0    -      -       +      -
    462B  VAL*     5.0     8.3    -      -       +      -
    463B  ARG      3.4     6.5    -      -       -      +
    464B  SER*     4.1    13.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with CYS 430 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    398B  LEU*     3.7     1.6    -      -       +      -
    404B  CYS*     2.0    51.1    -      -       +      -
    408B  ALA*     4.2     3.1    -      -       +      -
    409B  THR      3.3     5.2    -      -       -      +
    410B  TYR*     3.7    17.5    -      -       +      -
    429B  PHE*     1.3    75.6    -      -       -      +
    431B  VAL*     1.3    63.1    +      -       -      +
    432B  PHE*     3.6    14.1    -      -       -      -
    461B  VAL      3.5     1.6    -      -       -      +
    462B  VAL*     3.4     5.0    -      -       -      +
    463B  ARG*     3.0    44.3    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 431 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    323B  PHE*     3.2    33.8    -      -       +      -
    325B  VAL*     4.2    14.8    -      -       +      -
    330B  VAL*     4.2    19.5    -      -       +      -
    339B  PHE*     4.8    11.4    -      -       +      -
    409B  THR      2.8    39.1    +      -       -      +
    411B  VAL*     5.1     4.3    -      -       +      -
    429B  PHE*     5.3     1.1    -      -       +      -
    430B  CYS*     1.3    79.0    -      -       -      +
    432B  PHE*     1.3    65.3    +      -       -      +
    460B  LEU*     3.9    12.6    -      -       +      -
    461B  VAL      3.1     9.4    -      -       -      +
    462B  VAL*     4.4    20.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with PHE 432 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    437A  GLY*     3.9     4.9    -      -       -      -
    317B  TYR*     3.5    14.4    -      -       -      +
    323B  PHE*     3.8     7.2    -      -       -      -
    405B  PRO*     3.5    41.5    -      -       +      -
    407B  LEU      5.2     0.2    -      -       -      -
    408B  ALA*     3.6    14.4    -      -       +      +
    430B  CYS*     3.6    28.5    -      -       -      -
    431B  VAL*     1.3    81.1    -      -       -      +
    433B  GLU*     1.3    72.4    +      -       -      +
    434B  GLN*     3.9    19.1    -      -       +      -
    459B  VAL      3.7     0.3    -      -       -      +
    460B  LEU*     3.4     3.5    -      -       -      -
    461B  VAL*     2.9    64.4    +      -       +      +
    463B  ARG*     3.8    16.4    -      -       -      -
----------------------------------------------------------
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Residues in contact with GLU 433 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    313A  PRO*     4.0     5.9    -      -       +      +
    315B  GLN*     3.9     6.9    -      -       -      +
    317B  TYR*     3.0    35.1    +      -       +      -
    322B  ARG*     2.7    63.2    +      -       -      +
    323B  PHE*     3.8    15.4    -      -       +      -
    405B  PRO*     5.7     0.7    -      -       -      +
    432B  PHE*     1.3    77.7    -      -       -      +
    434B  GLN*     1.3    60.7    +      -       -      +
    435B  ASN      4.2     0.2    -      -       -      -
    458B  THR*     3.4    20.5    -      -       +      +
    459B  VAL      3.2     5.7    -      -       -      +
    460B  LEU*     4.5    11.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLN 434 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    434A  GLN*     4.4     2.2    -      -       -      +
    435A  ASN*     2.7    30.6    +      -       -      +
    436A  GLN*     3.0    22.1    +      -       -      +
    437A  GLY*     3.4     6.0    -      -       -      +
    315B  GLN*     3.5    23.0    -      -       -      +
    405B  PRO*     3.8    20.1    -      -       -      +
    432B  PHE*     3.9    15.5    +      -       +      -
    433B  GLU*     1.3    75.0    -      -       -      +
    435B  ASN*     1.3    64.0    +      -       -      +
    436B  GLN*     3.4    20.5    +      -       -      +
    458B  THR*     3.4     4.1    -      -       -      -
    459B  VAL*     2.8    45.4    +      -       +      +
    461B  VAL*     4.9     0.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 435 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    312A  PRO*     4.9     5.9    -      -       -      +
    313A  PRO*     3.2    32.1    +      -       +      +
    314A  LEU*     5.3     1.8    -      -       -      +
    315A  GLN*     5.7     0.9    -      -       +      +
    401A  GLY      5.6     1.0    +      -       -      -
    405A  PRO*     5.8     3.0    -      -       -      +
    434A  GLN*     2.9    13.3    +      -       -      -
    315B  GLN*     2.8    38.7    +      -       -      +
    434B  GLN*     1.3    73.5    -      -       -      +
    436B  GLN*     1.3    58.4    +      -       -      +
    437B  GLY*     2.9    31.0    +      -       -      -
    438B  LEU      4.6     0.7    +      -       -      -
    456B  ALA*     4.4    19.0    -      -       -      +
    457B  GLU      3.7     8.1    -      -       -      +
    458B  THR*     3.8    14.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 436 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    432A  PHE*     5.8     0.2    -      -       -      -
    434A  GLN*     3.1    14.9    +      -       -      +
    436A  GLN*     5.2     2.6    -      -       -      +
    434B  GLN*     3.4    24.5    -      -       -      +
    435B  ASN*     1.3    73.0    -      -       -      +
    437B  GLY*     1.3    61.2    +      -       -      +
    438B  LEU*     4.1    19.7    -      -       +      +
    457B  GLU*     2.9    42.6    +      -       +      +
    459B  VAL*     3.8    32.6    -      -       +      +
    478B  VAL*     5.3     2.2    -      -       -      +
    480B  HIS*     4.7     6.1    -      -       -      -
    486B  GLU*     5.7     0.8    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLY 437 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    404A  CYS*     5.2     1.3    -      -       -      -
    405A  PRO*     3.9    25.8    -      -       -      -
    432A  PHE*     3.7     8.6    -      -       -      -
    434A  GLN*     3.8     9.9    -      -       -      -
    463A  ARG*     2.7    35.5    +      -       -      -
    435B  ASN*     2.9    16.0    +      -       -      -
    436B  GLN*     1.3    77.7    -      -       -      +
    438B  LEU*     1.3    52.0    +      -       -      +
    457B  GLU      4.5     0.4    +      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 438 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    402A  VAL      4.3     4.8    +      -       -      -
    403A  ASP      4.7     0.4    -      -       -      -
    463A  ARG*     3.6    21.3    -      -       -      +
    474A  VAL*     4.4     3.6    -      -       +      -
    476A  ASP*     4.0     2.9    -      -       -      +
    490A  TYR*     3.7    48.2    -      -       +      +
    696A  THR*     4.2     9.6    -      -       -      +
    435B  ASN*     4.6     0.8    +      -       -      -
    436B  GLN*     4.1    15.0    -      -       +      +
    437B  GLY*     1.3    78.7    -      -       -      +
    439B  PRO*     1.3    92.0    -      -       +      +
    456B  ALA*     4.0     1.8    -      -       -      +
    457B  GLU*     3.0    36.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with PRO 439 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    402A  VAL*     3.5    16.5    -      -       +      +
    403A  ASP*     3.7    20.2    -      -       -      +
    463A  ARG*     4.3     0.9    -      -       -      +
    465A  MET*     3.8    23.8    -      -       +      -
    474A  VAL*     4.5     9.0    -      -       +      -
    696A  THR*     2.8    29.5    +      -       +      +
    438B  LEU*     1.3   101.7    -      -       +      +
    440B  LEU*     1.3    53.4    +      -       -      +
    441B  ARG      3.9    13.0    -      -       -      +
    442B  ARG*     4.2    12.8    -      -       +      -
    455B  LEU      3.4    11.0    -      -       -      +
    456B  ALA*     4.1     0.4    -      -       -      -
    457B  GLU*     4.4     1.0    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 440 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    695A  VAL*     3.1    19.2    -      -       +      -
    696A  THR*     2.8    34.1    +      -       -      +
    697A  VAL*     3.6    31.2    -      -       +      -
    438B  LEU      3.6     1.6    +      -       -      -
    439B  PRO*     1.3    73.6    -      -       -      +
    441B  ARG*     1.3    61.9    +      -       +      +
    455B  LEU*     2.7    39.4    +      -       +      +
    457B  GLU*     3.8    27.4    -      -       +      +
    481B  PRO*     4.1    17.3    -      -       +      -
    482B  SER*     4.5     7.4    -      -       -      +
    716B  SER*     3.6    23.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 441 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    302A  LEU*     3.6    40.1    +      -       -      +
    492A  THR*     3.3    10.3    -      -       -      +
    692A  PRO*     4.9     6.2    -      -       -      +
    693A  ASN*     3.9    26.6    +      -       +      +
    694A  THR      4.5     2.2    -      -       -      +
    695A  VAL*     4.6     3.4    -      -       +      -
    439B  PRO*     3.4     3.5    -      -       -      +
    440B  LEU*     1.3    86.3    -      -       +      +
    442B  ARG*     1.3    65.0    +      -       -      +
    453B  GLY      4.4     0.4    -      -       -      -
    454B  GLY*     3.3    19.8    -      -       -      +
    455B  LEU*     3.1    40.1    +      -       +      +
    714B  ASP*     3.7    10.1    -      -       -      -
    716B  SER*     3.1    46.7    +      -       -      +
    717B  PHE*     4.1     7.7    +      -       -      +
    722B  SER*     4.0    17.8    +      -       -      -
    723B  ILE      5.1     0.4    +      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 442 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    396A  THR*     3.1    25.6    +      -       -      -
    397A  PRO      2.9    29.3    +      -       -      -
    398A  LEU*     4.4     0.6    -      -       -      +
    402A  VAL*     5.3     0.2    -      -       +      -
    403A  ASP*     2.7    37.5    +      -       -      +
    465A  MET*     3.1    27.8    -      -       -      +
    467A  THR*     3.2     4.0    +      -       -      -
    472A  ASP*     2.7    41.0    +      -       -      +
    492A  THR*     3.2    15.7    +      -       +      -
    493A  GLY*     3.2    25.1    +      -       -      -
    693A  ASN*     3.7     3.8    +      -       -      -
    439B  PRO*     4.2     9.9    -      -       +      -
    441B  ARG*     1.3    79.3    -      -       -      +
    443B  HIS*     1.3    62.2    +      -       -      +
    444B  HIS*     3.4    18.1    -      -       -      +
    452B  PHE*     3.7    10.5    -      -       +      -
    453B  GLY      3.5     7.0    -      -       -      -
    454B  GLY*     4.2     0.4    -      -       -      -
----------------------------------------------------------
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Residues in contact with HIS 443 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    239A  PHE*     3.9     9.5    -      +       -      -
    302A  LEU*     4.7     4.0    -      -       +      -
    467A  THR*     3.7    10.5    -      -       +      -
    469A  LEU      3.6    17.5    -      -       -      -
    470A  ASN      3.5    20.7    +      -       -      -
    472A  ASP*     2.6    24.3    +      -       -      -
    493A  GLY*     4.1     1.5    -      -       -      -
    494A  TYR*     3.6    23.4    -      +       +      -
    693A  ASN*     3.7    12.3    -      -       -      +
    442B  ARG*     1.3    77.4    -      -       -      +
    444B  HIS*     1.3    60.7    +      -       -      +
    445B  SER*     3.9    14.0    -      -       -      -
    451B  TYR*     3.5    33.1    +      +       -      +
    452B  PHE*     3.3     8.6    -      -       -      -
    453B  GLY      2.9    36.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 444 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    396A  THR*     3.5    17.7    -      -       +      +
    397A  PRO*     3.7    18.4    +      -       +      +
    467A  THR*     3.4    24.4    +      -       -      +
    472A  ASP*     3.5     6.1    +      -       -      -
    757A  HIS*     3.8    15.2    +      +       -      -
    759A  GLY      3.2    22.4    +      -       -      -
    760A  PHE*     3.4    20.0    -      +       -      -
    442B  ARG*     3.4    26.1    -      -       -      +
    443B  HIS*     1.3    75.2    -      -       -      +
    445B  SER*     1.3    59.9    +      -       -      +
    446B  ASP*     3.0    39.0    +      -       -      -
    451B  TYR      3.9     2.2    -      -       -      -
    452B  PHE*     4.0    11.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with SER 445 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    239A  PHE*     5.8     1.9    -      -       -      -
    760A  PHE*     3.4     6.6    -      -       -      -
    443B  HIS*     3.9     9.5    +      -       -      -
    444B  HIS*     1.3    73.7    -      -       -      +
    446B  ASP*     1.3    61.3    +      -       -      +
    447B  LEU*     3.6    14.8    +      -       -      +
    449B  SER      2.8    16.7    +      -       -      -
    450B  HIS*     3.3    21.5    -      -       -      -
    451B  TYR*     2.9    54.2    +      -       -      -
----------------------------------------------------------
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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