Contacts of the strand formed by residues 194 - 206 (chain B) in PDB entry 4HXG


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 PRO 194 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    136B  ASP*     3.7    13.0    -      -       -      +
    137B  VAL*     4.1     6.5    -      -       +      -
    188B  PRO*     4.4    10.3    -      -       +      -
    189B  HIS      3.6     7.9    -      -       -      +
    190B  ARG*     3.3    39.5    -      -       +      +
    193B  ILE*     1.3   101.3    -      -       +      +
    195B  ARG*     1.3    62.5    +      -       -      +
    196B  TYR*     3.5    47.3    +      -       +      +
    506B  TRP*     5.6     1.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 195 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188B  PRO*     4.3     2.7    -      -       -      +
    189B  HIS*     2.8    26.7    +      -       +      +
    191B  ASP*     2.7    42.3    +      -       -      +
    193B  ILE*     3.5    18.6    -      -       -      +
    194B  PRO*     1.3    72.1    -      -       -      +
    196B  TYR*     1.3    62.4    +      -       -      +
    198B  LYS*     4.1    29.6    -      -       +      +
    199B  TYR*     3.0    59.1    +      -       +      +
    200B  TRP*     5.8     0.2    +      -       -      -
    216B  LYS*     4.7     2.0    -      -       -      +
    506B  TRP*     6.3     1.1    -      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 196 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    136B  ASP*     5.1     1.4    +      -       -      -
    137B  VAL*     3.0    29.7    +      -       +      -
    138B  PRO*     4.0    14.8    -      -       +      -
    141B  PHE*     6.4     1.3    -      +       -      -
    147B  PHE*     6.0     0.4    -      +       -      -
    172B  ARG*     3.9    24.7    +      -       +      +
    173B  PHE*     3.8    39.9    -      +       +      -
    188B  PRO*     4.0    15.9    -      -       +      -
    193B  ILE*     6.4     0.4    -      -       +      -
    194B  PRO*     3.5    41.4    +      -       +      +
    195B  ARG*     1.3    70.6    -      -       -      +
    197B  PHE*     1.3    83.2    +      -       +      +
    198B  LYS*     2.9    13.5    +      -       -      +
    200B  TRP*     6.0     0.4    -      -       -      +
    240B  VAL*     4.9     0.2    -      -       -      +
    506B  TRP*     4.0    36.9    -      +       -      +
----------------------------------------------------------
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Residues in contact with PHE 197 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    141B  PHE*     4.5    15.0    -      +       -      -
    173B  PHE*     4.4    23.8    -      +       -      -
    195B  ARG      3.8     1.0    +      -       -      -
    196B  TYR*     1.3    80.8    -      -       +      +
    198B  LYS*     1.3    57.6    +      -       -      +
    200B  TRP*     3.5    39.3    -      +       -      -
    220B  TYR*     6.1     2.9    -      +       -      -
    237B  LYS*     4.8    10.2    +      -       -      +
    240B  VAL*     4.0    17.7    -      -       +      +
    503B  ILE*     5.3     0.7    -      -       +      -
    506B  TRP*     3.3    40.8    -      +       +      -
----------------------------------------------------------
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Residues in contact with LYS 198 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    195B  ARG*     4.1    25.5    -      -       +      +
    196B  TYR      2.9     9.1    -      -       -      +
    197B  PHE*     1.3    79.7    -      -       -      +
    199B  TYR*     1.3    91.7    +      -       +      +
    200B  TRP*     4.2     1.6    -      -       -      -
    218B  SER*     3.0    34.3    +      -       -      -
    237B  LYS*     3.5    32.6    +      -       +      +
    238B  LYS*     3.5    18.5    +      -       -      +
    240B  VAL*     3.6    28.0    -      -       +      +
    506B  TRP*     6.5     0.7    -      -       +      -
    510B  GLU*     4.5     3.4    -      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 199 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188B  PRO*     3.8     1.4    -      -       -      +
    189B  HIS*     3.1    27.6    +      -       +      -
    195B  ARG*     3.0    43.4    +      -       +      +
    198B  LYS*     1.3   118.0    +      -       +      +
    200B  TRP*     1.3    71.1    +      -       -      +
    216B  LYS*     3.5    53.8    -      -       +      -
    217B  VAL      3.3     2.5    -      -       -      -
    218B  SER*     3.8    15.9    -      -       -      -
    236B  GLU*     3.2    30.1    +      -       +      -
    237B  LYS      3.9    11.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with TRP 200 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    173B  PHE      5.2     3.4    +      -       -      -
    175B  SER*     5.8     0.8    +      -       -      -
    186B  SER*     4.3     5.1    -      -       -      -
    187B  VAL      3.2    30.5    -      -       -      +
    188B  PRO*     3.9    10.0    -      -       +      +
    189B  HIS*     3.9     2.0    -      -       -      +
    195B  ARG      5.7     0.2    -      -       -      -
    197B  PHE*     3.5    48.4    -      +       -      +
    198B  LYS      4.0     4.0    -      -       -      -
    199B  TYR*     1.3    78.5    +      -       -      +
    201B  ASP*     1.3    68.7    +      -       -      +
    202B  ILE*     4.5     4.0    -      -       +      -
    216B  LYS      3.0     6.6    +      -       -      -
    217B  VAL*     2.7    50.5    +      -       +      +
    218B  SER*     3.4    22.2    -      -       -      -
    219B  PHE      3.6    20.2    -      -       -      +
    220B  TYR*     3.3    49.0    -      +       +      +
    232B  TYR      5.2     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with ASP 201 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    185B  VAL      3.7     1.4    -      -       -      +
    186B  SER*     3.7     1.6    -      -       -      -
    187B  VAL*     2.8    36.8    +      -       +      +
    188B  PRO      4.6     1.6    -      -       -      +
    189B  HIS*     2.9    34.2    +      -       -      -
    190B  ARG      4.9     0.7    +      -       -      -
    200B  TRP*     1.3    74.3    -      -       -      +
    202B  ILE*     1.3    60.7    +      -       -      +
    203B  TYR*     3.9    29.3    +      -       +      +
    212B  LYS*     4.3    11.4    -      -       -      -
    214B  PHE      3.4    10.5    -      -       -      +
    215B  GLU*     3.8     2.7    -      -       -      +
    216B  LYS      2.9    23.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with ILE 202 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    184B  VAL*     3.7    28.5    -      -       +      -
    185B  VAL      3.4     6.1    -      -       -      +
    186B  SER*     4.2     8.3    -      -       -      +
    200B  TRP*     4.5     3.8    -      -       +      -
    201B  ASP*     1.3    78.4    -      -       -      +
    203B  TYR*     1.3    59.3    +      -       -      +
    212B  LYS*     3.6     2.6    -      -       -      -
    213B  LEU*     2.7    38.8    +      -       +      -
    214B  PHE*     2.9    33.5    +      -       +      +
    217B  VAL*     4.2     9.4    -      -       +      -
    219B  PHE*     3.5    26.7    -      -       +      +
    220B  TYR*     3.8    13.9    -      -       -      -
    221B  ALA*     4.2     1.8    -      -       +      +
    231B  LEU*     4.1    18.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with TYR 203 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    170B  LYS*     4.9     6.7    -      -       -      -
    183B  ILE      3.5     0.5    -      -       -      +
    184B  VAL*     3.4     6.2    -      -       -      +
    185B  VAL*     2.7    51.9    +      -       +      +
    187B  VAL*     4.1    21.5    -      -       +      -
    201B  ASP*     3.9    24.9    +      -       +      +
    202B  ILE*     1.3    76.1    -      -       -      +
    204B  LEU*     1.3    60.6    +      -       -      +
    205B  TRP*     4.0     1.1    -      -       +      +
    210B  GLU*     3.7    44.4    -      -       +      +
    211B  GLU      3.4     4.5    -      -       -      +
    212B  LYS*     3.7    49.0    -      -       +      -
    213B  LEU*     4.4     4.3    -      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 204 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    179B  HIS*     4.1    20.4    -      -       +      -
    182B  SER*     3.5    33.0    -      -       -      +
    183B  ILE      3.9     9.6    -      -       -      +
    184B  VAL*     4.3     8.7    -      -       +      -
    203B  TYR*     1.3    72.8    -      -       -      +
    205B  TRP*     1.3    59.7    +      -       -      +
    206B  LYS*     6.2     0.7    -      -       +      -
    210B  GLU*     3.0     5.4    -      -       -      -
    211B  GLU*     2.7    45.6    +      -       +      +
    213B  LEU*     4.1    27.0    -      -       +      +
    229B  ILE*     5.2     0.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with TRP 205 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    156B  VAL*     5.5     1.3    -      -       +      -
    166B  GLU*     3.2    35.9    -      -       +      -
    167B  GLN      5.2     0.7    -      -       -      -
    168B  PHE*     3.3    59.6    -      +       +      +
    170B  LYS*     4.9     3.3    -      -       -      +
    182B  SER*     3.5     3.4    -      -       -      -
    183B  ILE*     2.7    58.5    +      -       +      +
    185B  VAL*     4.3     9.2    -      -       +      -
    203B  TYR*     5.2     0.7    -      -       +      +
    204B  LEU*     1.3    75.3    -      -       -      +
    206B  LYS*     1.3    66.6    +      -       -      +
    207B  ASP      3.5    14.8    -      -       -      -
    208B  GLY*     3.2    31.3    +      -       -      -
    209B  GLU      3.4     9.3    +      -       -      -
    210B  GLU*     3.9    23.3    +      -       +      -
----------------------------------------------------------
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Residues in contact with LYS 206 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    181B  ASP*     3.1    49.8    +      -       -      +
    182B  SER*     4.0    14.3    +      -       -      +
    204B  LEU*     4.2     0.6    +      -       +      -
    205B  TRP*     1.3    78.7    -      -       -      +
    207B  ASP*     1.3    96.0    +      -       +      +
    208B  GLY      3.2     2.5    -      -       -      -
    209B  GLU*     2.8    32.1    +      -       -      +
----------------------------------------------------------
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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