Contacts of the helix formed by residues 229 - 250 (chain A) in PDB entry 1OL5


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

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

Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB   - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC   - hydrophobic-hydrophilic contact (destabilizing contact)
+/-  - indicates presence/absence of a specific contacts
*    - indicates residues forming contacts  by their side chain
       (including CA atoms)
Residues in contact with ASP 229 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    227A  LYS      4.4     0.2    +      -       -      -
    228A  PHE*     1.3    73.4    -      -       -      +
    230A  GLU*     1.3    64.0    +      -       -      +
    231A  GLN*     2.9    23.3    +      -       -      +
    232A  ARG*     3.0    17.6    +      -       -      +
    233A  THR*     2.8    23.8    +      -       -      -
    323A  LEU*     4.2     1.8    -      -       -      -
----------------------------------------------------------
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Residues in contact with GLU 230 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    229A  ASP*     1.3    72.8    -      -       -      +
    231A  GLN*     1.3    65.6    +      -       -      +
    233A  THR*     3.8     0.5    -      -       -      -
    234A  ALA*     2.9    27.2    +      -       -      +
    323A  LEU*     4.3    10.1    -      -       +      +
    351A  PHE      5.9     0.2    -      -       -      -
    352A  VAL*     5.6     0.2    -      -       -      -
    353A  THR*     2.6    47.1    +      -       -      +
    356A  ALA*     4.2     2.4    -      -       -      +
    382A  TRP*     2.9    35.6    +      -       +      -
    386A  ASN*     4.0    19.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 231 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    229A  ASP*     2.9    14.1    +      -       -      +
    230A  GLU*     1.3    75.8    -      -       -      +
    232A  ARG*     1.3    71.4    +      -       -      +
    235A  THR*     2.8    59.5    +      -       -      +
    386A  ASN*     3.3    25.2    +      -       +      +
    388A  SER      4.2     6.7    -      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 232 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    221A  GLU*     2.5    47.3    +      -       -      +
    225A  LEU*     3.6    19.5    -      -       -      +
    228A  PHE*     4.2    16.3    -      -       +      -
    229A  ASP*     3.0    21.4    +      -       -      +
    231A  GLN*     1.3    86.5    +      -       -      +
    233A  THR*     1.3    62.0    +      -       -      +
    235A  THR*     3.8     4.5    -      -       -      -
    236A  TYR*     3.2    57.6    +      -       +      -
    264A  LEU*     5.4     1.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with THR 233 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    228A  PHE*     3.2    18.3    -      -       -      +
    229A  ASP      2.8    20.4    +      -       -      -
    230A  GLU      3.8     2.5    -      -       -      -
    232A  ARG*     1.3    76.4    -      -       -      +
    234A  ALA*     1.3    58.9    +      -       -      +
    236A  TYR*     3.4     3.0    +      -       -      +
    237A  ILE*     2.9    33.7    +      -       +      +
    319A  CYS*     3.9    13.0    -      -       -      +
    322A  PHE*     3.5    32.2    -      -       +      +
    323A  LEU*     3.4    29.4    -      -       +      +
    382A  TRP*     3.9    10.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with ALA 234 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    230A  GLU      2.9    16.6    +      -       -      +
    233A  THR*     1.3    74.4    -      -       -      +
    235A  THR*     1.3    60.8    +      -       -      +
    237A  ILE*     3.8     0.9    -      -       -      +
    238A  THR*     2.7    35.3    +      -       -      -
    382A  TRP*     4.0    15.2    -      -       +      -
    383A  ILE*     4.1    19.1    -      -       +      +
    386A  ASN*     3.8    30.5    -      -       +      +
    387A  SER*     3.8     5.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with THR 235 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    231A  GLN*     2.8    42.8    +      -       -      +
    232A  ARG*     3.8     7.2    -      -       -      -
    233A  THR      3.3     0.2    -      -       -      -
    234A  ALA*     1.3    78.8    -      -       -      +
    236A  TYR*     1.3    64.6    +      -       +      +
    238A  THR*     3.3     2.9    +      -       -      -
    239A  GLU*     3.1    44.9    +      -       +      +
    387A  SER*     4.0     8.5    -      -       -      -
    388A  SER      3.4    14.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with TYR 236 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    218A  VAL*     4.2     7.2    -      -       +      +
    221A  GLU*     4.5     1.9    -      -       -      +
    228A  PHE*     3.7    35.0    -      +       -      -
    232A  ARG*     3.2    51.4    +      -       +      +
    233A  THR      3.7     3.6    -      -       -      +
    235A  THR*     1.3    80.5    -      -       +      +
    237A  ILE*     1.3    66.6    +      -       -      +
    239A  GLU*     3.2    15.7    +      -       -      -
    240A  LEU*     2.9    25.9    +      -       -      +
    264A  LEU*     3.6    41.8    -      -       +      +
    268A  GLY      3.9    13.3    +      -       -      -
    270A  LEU*     3.4    19.1    -      -       +      +
    322A  PHE*     3.9    21.3    -      +       +      -
----------------------------------------------------------
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Residues in contact with ILE 237 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    233A  THR*     2.9    29.6    +      -       +      +
    234A  ALA*     3.8     4.9    -      -       -      +
    236A  TYR*     1.3    74.7    -      -       -      +
    238A  THR*     1.3    53.2    +      -       -      +
    240A  LEU*     3.6     3.8    -      -       +      +
    241A  ALA*     2.6    38.3    +      -       -      +
    315A  LEU*     4.2    35.6    -      -       +      +
    318A  LEU*     4.5     2.9    -      -       +      -
    319A  CYS*     3.9    43.1    -      -       +      +
    322A  PHE*     4.1    16.2    -      -       +      -
    359A  LEU*     4.9     5.2    -      -       +      -
    363A  LEU*     5.9     0.4    -      -       +      -
    377A  VAL*     4.3    10.8    -      -       +      -
    382A  TRP*     5.0     0.2    -      -       +      -
    383A  ILE*     4.0    20.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 238 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    234A  ALA      2.7    16.7    +      -       -      -
    235A  THR*     3.4     4.5    -      -       -      -
    237A  ILE*     1.3    75.1    -      -       -      +
    239A  GLU*     1.3    67.5    +      -       +      +
    242A  ASN*     3.0    35.9    +      -       -      +
    378A  LEU*     3.9    18.9    -      -       +      +
    383A  ILE*     3.3    17.7    -      -       +      +
    387A  SER*     2.6    27.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 239 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    192A  ASN*     3.6    27.4    +      -       -      +
    235A  THR*     3.1    25.4    +      -       +      +
    236A  TYR*     3.5    20.8    -      -       -      +
    238A  THR*     1.3    77.9    -      -       +      +
    240A  LEU*     1.3    58.9    +      -       -      +
    242A  ASN*     3.3     9.0    +      -       -      +
    243A  ALA*     2.9    28.3    +      -       -      +
    268A  GLY      4.4     0.7    -      -       -      +
    269A  GLU*     3.4    24.4    -      -       -      +
    270A  LEU*     3.1    32.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 240 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    192A  ASN*     5.7     0.2    -      -       -      -
    236A  TYR      2.9    16.5    +      -       -      +
    237A  ILE*     3.7     3.6    -      -       +      +
    239A  GLU*     1.3    77.8    -      -       -      +
    241A  ALA*     1.3    57.1    +      -       -      +
    243A  ALA*     3.1     4.6    +      -       -      +
    244A  LEU*     2.8    42.7    +      -       +      +
    257A  ILE*     4.0    16.2    -      -       +      -
    262A  LEU*     3.8    17.5    -      -       +      -
    270A  LEU*     3.5    11.8    -      -       +      +
    272A  ILE*     3.3    36.3    -      -       +      -
    315A  LEU*     3.3    29.2    -      -       +      -
    318A  LEU*     3.3    26.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with ALA 241 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    237A  ILE      2.6    21.9    +      -       -      +
    240A  LEU*     1.3    72.6    -      -       -      +
    242A  ASN*     1.3    57.8    +      -       -      +
    244A  LEU*     3.9     3.6    -      -       -      +
    245A  SER*     3.0    29.3    +      -       -      -
    315A  LEU*     4.5     4.7    -      -       +      +
    374A  LEU*     4.0    25.7    -      -       +      +
    377A  VAL*     4.4    13.7    -      -       +      -
    378A  LEU*     3.3    28.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 242 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    190A  HIS*     3.8    15.9    -      -       +      +
    192A  ASN*     4.9     3.3    -      -       -      +
    238A  THR*     3.0    29.3    +      -       -      +
    239A  GLU*     3.5     7.1    -      -       -      +
    241A  ALA*     1.3    75.6    -      -       -      +
    243A  ALA*     1.3    64.4    +      -       -      +
    245A  SER*     3.4     5.4    +      -       -      -
    246A  TYR*     3.2    22.2    +      -       -      +
    378A  LEU*     2.9    34.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 243 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    190A  HIS*     3.8    11.2    +      -       -      -
    192A  ASN*     3.9    21.8    -      -       +      +
    193A  ILE*     3.9     7.5    -      -       +      +
    239A  GLU      2.9    14.5    +      -       -      +
    240A  LEU*     3.1     5.6    +      -       -      +
    242A  ASN*     1.3    77.8    -      -       -      +
    244A  LEU*     1.3    61.5    +      -       -      +
    246A  TYR*     3.3     6.4    +      -       -      +
    247A  CYS*     3.1    23.8    +      -       -      -
    272A  ILE*     3.2    28.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 244 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    240A  LEU*     2.8    33.0    +      -       +      +
    241A  ALA      3.9     1.6    -      -       -      +
    243A  ALA*     1.3    69.7    -      -       -      +
    245A  SER*     1.3    60.9    +      -       -      +
    247A  CYS*     3.1     8.5    +      -       +      -
    248A  HIS*     2.8    38.8    +      -       -      +
    254A  HIS*     4.5     7.6    -      -       +      -
    257A  ILE*     3.4    35.9    -      -       +      -
    272A  ILE*     4.0    16.6    -      -       +      -
    311A  ASP*     4.1    27.1    -      -       +      +
    315A  LEU*     4.3    11.9    -      -       +      -
    374A  LEU*     3.6    28.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with SER 245 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    241A  ALA      3.0    19.5    +      -       -      -
    242A  ASN*     3.6     9.2    -      -       -      -
    243A  ALA      3.3     0.2    -      -       -      -
    244A  LEU*     1.3    77.0    -      -       -      +
    246A  TYR*     1.3    60.3    +      -       -      +
    248A  HIS*     3.4     2.4    +      -       -      +
    249A  SER*     3.0    24.1    +      -       -      -
    374A  LEU*     3.5    17.0    -      -       -      +
    375A  ARG*     5.9     0.7    -      -       -      +
    378A  LEU*     5.0     6.3    -      -       -      +
   1391A  SO4      3.4    21.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 246 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188A  LEU*     3.8    26.8    -      -       +      +
    189A  ARG      3.0    36.6    +      -       -      -
    190A  HIS*     3.6    27.8    -      -       +      +
    193A  ILE*     3.6    18.2    -      -       +      -
    242A  ASN      3.2     6.0    +      -       -      +
    243A  ALA      3.5     7.0    -      -       -      +
    244A  LEU      3.3     0.2    -      -       -      -
    245A  SER*     1.3    78.6    -      -       -      +
    247A  CYS*     1.3    64.6    +      -       -      +
    249A  SER*     2.5    27.9    +      -       -      -
    250A  LYS*     3.3    24.4    +      -       +      +
     32B  ASP*     3.0    36.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with CYS 247 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188A  LEU*     4.5     7.6    -      -       -      -
    193A  ILE*     3.8    20.0    -      -       -      -
    243A  ALA      3.1    16.4    +      -       -      +
    244A  LEU*     3.1    20.4    +      -       +      +
    246A  TYR*     1.3    81.6    -      -       -      +
    248A  HIS*     1.3    59.5    +      -       +      +
    250A  LYS*     3.0    16.3    +      -       -      +
    251A  ARG      3.1     0.2    +      -       -      -
    252A  VAL*     2.8    40.9    +      -       +      +
    254A  HIS*     5.6     3.6    -      -       -      +
    272A  ILE*     5.1     4.5    -      -       -      -
    275A  PHE*     4.2    23.3    -      -       -      -
----------------------------------------------------------
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Residues in contact with HIS 248 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    244A  LEU*     2.8    23.3    +      -       +      +
    245A  SER      3.9     3.6    -      -       -      +
    247A  CYS*     1.3    75.9    -      -       +      +
    249A  SER*     1.3    57.1    +      -       -      +
    250A  LYS      2.9     5.4    -      -       -      -
    251A  ARG*     2.6    27.7    +      -       -      +
    252A  VAL      3.3    17.7    -      -       -      +
    308A  GLU*     3.3    64.4    +      -       +      +
    311A  ASP*     3.2    25.4    +      -       +      +
    312A  LEU*     4.1     9.7    -      -       +      +
    374A  LEU*     3.5    22.8    -      -       +      +
   1391A  SO4      4.4    11.8    +      -       -      +
   1394A   MG      4.3     4.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with SER 249 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    245A  SER      3.0    13.9    +      -       -      -
    246A  TYR*     2.5    27.9    +      -       -      -
    248A  HIS*     1.3    77.2    -      -       -      +
    250A  LYS*     1.3    78.0    +      -       -      +
    251A  ARG*     3.3     4.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 250 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188A  LEU*     4.5     6.1    -      -       +      -
    246A  TYR*     3.6    37.0    -      -       +      +
    247A  CYS      3.0     9.0    +      -       -      +
    248A  HIS      2.9     0.6    -      -       -      -
    249A  SER*     1.3   101.5    +      -       -      +
    251A  ARG*     1.3    70.3    +      -       -      +
    252A  VAL*     3.3     2.9    +      -       +      +
    280A  HIS*     3.4    16.8    +      -       -      -
     32B  ASP*     3.9    33.3    +      -       -      +
     33B  SER*     6.0     0.6    -      -       -      +
     35B  PHE*     3.8    31.8    -      -       +      +
     36B  GLU*     6.0     1.6    -      -       +      +
----------------------------------------------------------
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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).

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