Contacts of the helix formed by residues 332 - 355 (chain B) in PDB entry 2VXO


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 332 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    330B  THR*     3.2     7.7    -      -       -      +
    331B  THR*     1.3    80.8    +      -       -      +
    333B  PRO*     1.3    65.7    -      -       -      +
    334B  GLU*     3.5    14.0    +      -       -      +
    335B  GLU*     3.2    33.5    +      -       -      +
    336B  LYS*     3.0    24.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with PRO 333 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    331B  THR      3.5     5.8    -      -       -      +
    332B  SER*     1.3    82.4    -      -       -      +
    334B  GLU*     1.3    64.6    +      -       -      +
    336B  LYS*     3.7    14.1    -      -       +      +
    337B  ARG*     3.1    34.4    +      -       -      +
    445B  ILE*     5.0     1.9    -      -       +      +
    515B  LYS*     6.4     0.4    -      -       -      +
    526B  TYR*     3.6    43.7    -      -       +      +
    693B  GLU*     3.6    40.2    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 334 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    311B  PRO*     5.1    13.4    -      -       -      +
    332B  SER*     3.3     8.8    +      -       -      +
    333B  PRO*     1.3    77.3    -      -       -      +
    335B  GLU*     1.3    62.9    +      -       +      +
    337B  ARG*     3.3     3.2    +      -       -      +
    338B  LYS*     3.0    30.2    +      -       -      +
    381B  ALA*     3.9    37.3    -      -       +      +
    382B  SER*     6.0     1.4    -      -       -      -
    526B  TYR*     5.0     8.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 335 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    308B  THR*     6.0     0.7    -      -       -      -
    310B  LEU*     3.9    31.1    -      -       +      +
    311B  PRO*     6.0     1.6    -      -       +      -
    324B  SER*     4.7     3.0    -      -       -      -
    325B  LYS*     4.6    20.3    +      -       -      +
    330B  THR*     3.7    18.5    +      -       +      +
    332B  SER*     3.2    29.3    +      -       -      +
    334B  GLU*     1.3    76.1    -      -       +      +
    336B  LYS*     1.3    64.8    +      -       -      +
    338B  LYS*     4.0     4.7    -      -       -      +
    339B  ILE*     2.8    39.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with LYS 336 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    327B  LEU*     3.8    20.4    -      -       +      -
    330B  THR*     3.9    14.5    -      -       +      +
    331B  THR      3.9    17.9    -      -       -      -
    332B  SER      3.0    17.3    +      -       -      +
    333B  PRO*     3.7     9.2    -      -       +      +
    334B  GLU      3.3     0.4    -      -       -      -
    335B  GLU*     1.3    76.1    -      -       -      +
    337B  ARG*     1.3    57.3    +      -       -      +
    339B  ILE*     3.8     0.9    -      -       -      +
    340B  ILE*     2.9    41.7    +      -       +      +
    444B  ALA      2.9    24.8    +      -       -      +
    445B  ILE*     4.7     7.0    -      -       +      +
    447B  VAL      2.8    22.0    +      -       -      -
    449B  CYS*     3.4    20.3    -      -       -      +
    580B  LEU*     3.9     9.4    -      -       +      +
    693B  GLU*     2.7    29.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 337 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    333B  PRO*     3.1    26.1    +      -       -      +
    334B  GLU      3.8     3.6    -      -       -      +
    336B  LYS*     1.3    76.3    -      -       -      +
    338B  LYS*     1.3    57.5    +      -       -      +
    340B  ILE*     3.7     6.0    -      -       -      +
    341B  GLY*     2.7    34.1    +      -       -      -
    380B  VAL*     4.4    11.5    -      -       -      +
    381B  ALA*     3.4    25.6    +      -       -      +
    382B  SER*     3.4    23.6    +      -       -      +
    383B  GLY      4.1     0.4    -      -       -      +
    441B  PRO*     4.4    11.2    -      -       +      -
    445B  ILE*     3.7    22.0    -      -       +      +
    524B  ARG*     4.1     4.4    -      -       -      +
    526B  TYR*     4.3     1.8    +      -       -      -
    693B  GLU*     3.0    42.0    +      -       -      -
   1694B  XMP      2.8    47.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 338 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    308B  THR*     3.8     9.0    +      -       +      -
    309B  THR*     2.7    36.6    +      -       -      +
    310B  LEU      4.9     0.4    -      -       -      -
    311B  PRO*     4.1    28.6    -      -       +      +
    334B  GLU      3.0    17.6    +      -       -      +
    335B  GLU*     4.0     4.3    -      -       -      +
    337B  ARG*     1.3    72.7    -      -       -      +
    339B  ILE*     1.3    58.1    +      -       -      +
    341B  GLY*     5.0     1.1    -      -       -      -
    342B  ASP*     2.7    64.5    +      -       -      +
    380B  VAL*     6.1     7.0    -      -       +      -
    381B  ALA*     5.5    11.8    -      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 339 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    303B  PHE*     4.6     0.4    -      -       -      +
    306B  GLY*     3.5    31.6    -      -       -      +
    307B  THR      3.8     2.0    -      -       -      +
    308B  THR*     3.8    18.8    -      -       +      +
    324B  SER*     3.5    28.7    -      -       -      +
    325B  LYS      3.7     6.1    -      -       -      +
    327B  LEU*     3.9    28.0    -      -       +      +
    330B  THR*     3.7    23.1    -      -       -      +
    335B  GLU*     2.8    26.8    +      -       +      +
    336B  LYS      3.8     3.1    -      -       -      +
    338B  LYS*     1.3    75.8    -      -       -      +
    340B  ILE*     1.3    57.1    +      -       -      +
    342B  ASP*     4.0     0.5    -      -       -      +
    343B  THR*     2.8    36.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 340 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    272B  ASN*     4.1    15.9    -      -       -      +
    274B  PHE*     4.0     6.5    -      -       +      -
    303B  PHE*     3.4    25.0    -      -       +      -
    327B  LEU*     3.7    24.2    -      -       +      -
    336B  LYS      2.9    24.8    +      -       -      +
    337B  ARG*     3.8     4.3    -      -       -      +
    339B  ILE*     1.3    74.9    -      -       -      +
    341B  GLY*     1.3    59.4    +      -       -      +
    344B  PHE*     3.0    29.8    +      -       +      +
    440B  GLY      4.9     1.3    -      -       -      +
    441B  PRO*     3.8    26.5    -      -       +      +
    444B  ALA*     3.5    32.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLY 341 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    337B  ARG      2.7    21.6    +      -       -      -
    338B  LYS*     3.8     0.4    -      -       -      -
    340B  ILE*     1.3    76.8    -      -       -      +
    342B  ASP*     1.3    62.6    +      -       -      +
    344B  PHE*     3.5     2.0    +      -       -      +
    345B  VAL*     3.2    28.6    +      -       -      +
    380B  VAL*     5.9     1.6    -      -       -      -
    387B  LEU*     4.1    26.7    -      -       -      -
    392B  HIS*     4.4     4.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with ASP 342 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    308B  THR*     2.3    33.8    +      -       -      +
    338B  LYS*     2.7    47.0    +      -       -      +
    339B  ILE      4.0     1.6    -      -       -      +
    341B  GLY*     1.3    70.6    -      -       -      -
    343B  THR*     1.3    62.9    +      -       -      +
    345B  VAL*     3.5     2.6    +      -       -      +
    346B  LYS*     3.1    39.7    +      -       -      +
    392B  HIS*     3.0    33.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 343 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    302B  SER*     4.0    13.9    -      -       -      +
    303B  PHE*     3.7    30.2    -      -       +      -
    306B  GLY*     4.2     8.0    -      -       -      -
    307B  THR      4.4     6.4    +      -       -      -
    339B  ILE*     2.8    34.5    +      -       -      +
    342B  ASP*     1.3    73.6    -      -       -      +
    344B  PHE*     1.3    65.0    +      -       -      +
    346B  LYS*     3.2    13.2    +      -       -      +
    347B  ILE*     2.9    42.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 344 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    242B  LEU*     4.2    35.9    -      -       +      -
    243B  LEU      6.6     0.2    -      -       -      -
    244B  SER*     6.3     5.8    -      -       -      -
    270B  ILE*     3.6    38.5    -      -       +      +
    272B  ASN*     6.0     2.7    -      -       +      -
    303B  PHE*     3.6    17.1    -      +       +      -
    340B  ILE*     3.0    19.9    +      -       +      +
    341B  GLY*     3.7     5.8    -      -       -      +
    343B  THR*     1.3    77.0    -      -       -      +
    345B  VAL*     1.3    65.5    +      -       +      +
    347B  ILE*     3.8     2.8    -      -       -      +
    348B  ALA*     2.9    34.4    +      -       +      +
    387B  LEU*     4.2    22.4    -      -       +      -
    388B  ILE*     5.4     6.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 345 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    341B  GLY      3.2    17.5    +      -       -      +
    342B  ASP      4.1     2.9    -      -       -      +
    343B  THR      3.3     0.2    -      -       -      -
    344B  PHE*     1.3    83.8    -      -       +      +
    346B  LYS*     1.3    57.3    +      -       -      +
    348B  ALA*     3.5     4.0    +      -       -      +
    349B  ASN*     2.9    29.3    +      -       -      +
    387B  LEU*     4.0    21.3    -      -       +      +
    388B  ILE*     5.0     5.8    -      -       +      +
    392B  HIS*     3.4    36.3    -      -       +      +
    395B  THR*     3.6    20.6    -      -       +      -
    398B  ILE*     3.9    22.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with LYS 346 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    307B  THR*     3.5    24.2    +      -       -      +
    308B  THR*     4.8     2.8    +      -       -      +
    342B  ASP*     3.1    37.2    +      -       -      +
    343B  THR*     3.2    11.2    +      -       -      +
    345B  VAL*     1.3    74.2    -      -       -      +
    347B  ILE*     1.3    60.9    +      -       +      +
    349B  ASN*     3.6     3.5    +      -       -      +
    350B  GLU*     3.0    26.0    +      -       -      +
    392B  HIS*     6.2     0.9    -      -       +      -
    393B  ASN      4.2    19.7    -      -       -      +
    394B  ASP*     4.5    10.0    -      -       +      +
    395B  THR*     4.0    10.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 347 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    270B  ILE*     4.3    13.0    -      -       +      -
    297B  ILE*     4.4    15.7    -      -       +      -
    299B  ALA*     3.9    13.5    -      -       +      -
    302B  SER*     4.1    13.0    -      -       -      +
    303B  PHE*     3.8    19.3    -      -       +      -
    343B  THR*     2.9    40.0    +      -       +      +
    344B  PHE      4.0     2.7    -      -       -      +
    346B  LYS*     1.3    73.7    -      -       +      +
    348B  ALA*     1.3    66.6    +      -       -      +
    350B  GLU*     2.9    12.3    +      -       +      +
    351B  VAL*     2.8    36.2    +      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 348 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    242B  LEU*     4.2    24.4    -      -       +      +
    270B  ILE*     3.9    17.6    -      -       +      +
    344B  PHE*     2.9    21.5    +      -       +      +
    345B  VAL*     3.5     7.4    -      -       -      +
    347B  ILE*     1.3    78.0    -      -       -      +
    349B  ASN*     1.3    63.2    +      -       -      +
    351B  VAL*     3.0    13.3    +      -       -      +
    352B  ILE*     3.1    18.5    +      -       +      +
    388B  ILE*     6.4     0.2    -      -       +      -
    398B  ILE*     3.7    14.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 349 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    345B  VAL      2.9    18.7    +      -       -      +
    346B  LYS*     3.7     5.8    +      -       -      +
    348B  ALA*     1.3    74.2    -      -       -      +
    350B  GLU*     1.3    62.7    +      -       -      +
    352B  ILE*     3.5     5.3    +      -       -      +
    353B  GLY*     3.2    16.8    +      -       -      -
    394B  ASP      3.9    12.7    +      -       -      +
    395B  THR*     3.3    20.3    -      -       +      +
    396B  GLU*     4.0     4.6    -      -       -      +
    397B  LEU*     2.9    43.3    +      -       -      +
    398B  ILE*     3.1    22.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 350 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    346B  LYS      3.0    14.8    +      -       -      +
    347B  ILE*     2.9    18.1    +      -       +      +
    349B  ASN*     1.3    77.4    -      -       -      +
    351B  VAL*     1.3    63.9    +      -       +      +
    353B  GLY*     3.3     2.6    +      -       -      -
    354B  GLU*     2.8    52.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 351 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    240B  LEU*     5.8     1.1    -      -       +      -
    242B  LEU*     6.5     0.4    -      -       +      -
    268B  VAL*     4.2    32.5    -      -       +      -
    270B  ILE*     5.2     1.3    -      -       +      -
    295B  LYS*     4.4     7.4    -      -       -      -
    297B  ILE*     4.0    28.9    -      -       +      -
    347B  ILE*     2.8    35.4    +      -       +      +
    348B  ALA*     3.6     8.3    -      -       -      +
    350B  GLU*     1.3    70.5    -      -       +      +
    352B  ILE*     1.3    68.0    +      -       +      +
    354B  GLU*     3.3    12.3    +      -       +      +
    355B  MET*     3.3    32.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 352 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    240B  LEU*     3.9    29.2    -      -       +      -
    242B  LEU*     5.8     2.9    -      -       +      -
    348B  ALA*     3.1    17.8    +      -       +      +
    349B  ASN*     3.8     6.3    -      -       -      +
    351B  VAL*     1.3    75.8    -      -       +      +
    353B  GLY*     1.3    61.7    +      -       -      +
    355B  MET*     3.4    12.7    +      -       -      +
    356B  ASN      3.5     8.1    +      -       -      -
    357B  LEU*     3.5    36.0    +      -       +      +
    359B  PRO*     5.9     1.6    -      -       +      -
    362B  VAL*     5.7     2.7    -      -       +      -
    364B  LEU*     5.5     4.5    -      -       +      -
    397B  LEU*     4.4    16.8    -      -       +      -
    398B  ILE*     3.8    28.9    -      -       +      -
    401B  LEU*     4.1    21.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLY 353 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    349B  ASN      3.2    10.8    +      -       -      -
    350B  GLU*     3.3     5.1    +      -       -      -
    351B  VAL      3.2     0.8    -      -       -      -
    352B  ILE*     1.3    76.3    -      -       -      +
    354B  GLU*     1.3    57.7    +      -       -      +
    356B  ASN*     3.1    26.6    +      -       -      +
    357B  LEU      5.8     0.2    -      -       -      -
    397B  LEU*     3.7    18.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 354 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    350B  GLU*     2.8    53.4    +      -       -      +
    351B  VAL*     3.3    10.4    +      -       -      +
    353B  GLY*     1.3    76.0    -      -       -      +
    355B  MET*     1.3    60.6    +      -       +      +
    356B  ASN*     3.2    12.5    +      -       -      -
----------------------------------------------------------
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Residues in contact with MET 355 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    240B  LEU*     4.9     3.4    -      -       -      -
    266B  ILE*     3.7    36.6    -      -       +      -
    268B  VAL*     4.9     0.9    -      -       -      -
    295B  LYS*     3.8    29.8    -      -       +      -
    351B  VAL*     3.3    29.4    +      -       +      +
    352B  ILE      3.9     1.3    -      -       -      +
    353B  GLY      3.2     0.6    -      -       -      -
    354B  GLU*     1.3    78.6    -      -       +      +
    356B  ASN*     1.3    71.1    +      -       -      +
    357B  LEU*     3.1    32.5    +      -       +      +
----------------------------------------------------------
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A short description of the analytical approach
The contact analysis used in this page is based upon the approach developed in: Sobolev V., Wade R.C., Vriend G. and Edelman M. PROTEINS (1996) 25, 120-129. Contact legitimacy depends on the hydrophobic-hydrophilic properties of the contacting atoms. In order to define it, for each inter-atomic contact, eight atom classes have been introduced:


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

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

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