Contacts of the strand formed by residues 69 - 76 (chain C) in PDB entry 2OVI


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 VAL 69 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     64B  VAL*     3.7    27.4    -      -       +      -
     98B  HIS      3.3    11.0    -      -       -      +
     99B  ILE*     4.2    19.5    -      -       +      -
    132B  MET*     3.5    27.4    -      -       +      +
    133B  LEU*     4.6     3.6    -      -       +      -
     64C  VAL      3.7     1.7    -      -       -      +
     65C  HIS*     3.6     0.9    -      -       -      -
     66C  THR*     2.8    44.1    +      -       +      +
     67C  ALA      3.9     0.6    -      -       -      -
     68C  ASP*     1.3    91.4    -      -       +      +
     70C  ILE*     1.3    66.8    +      -       -      +
     71C  LEU*     3.8    15.9    -      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 70 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     86B  TYR*     4.6    19.7    -      -       +      +
     97B  GLY*     3.1     6.1    -      -       -      -
     98B  HIS*     2.9    50.9    +      -       +      +
     63C  LEU*     4.0    28.0    -      -       +      -
     64C  VAL      3.3     7.9    -      -       -      +
     65C  HIS*     3.9    35.7    -      -       +      +
     66C  THR      5.0     1.6    -      -       -      +
     68C  ASP      5.6     0.4    -      -       -      -
     69C  VAL*     1.3    82.9    -      -       -      +
     71C  LEU*     1.3    61.2    +      -       -      +
     72C  GLU*     4.8     7.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 71 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     62B  THR*     4.5     5.2    -      -       +      +
     63B  LEU*     4.4     4.7    -      -       -      -
     64B  VAL*     3.3    37.9    -      -       +      +
     71B  LEU      5.1     0.2    -      -       -      +
     89B  LEU*     4.4    13.2    -      -       +      -
     95B  MET*     4.0    27.6    -      -       -      -
     96B  SER      3.8     5.4    -      -       -      +
     99B  ILE*     4.9     7.6    -      -       +      -
    133B  LEU*     3.5    19.3    -      -       +      -
     63C  LEU*     3.2     4.4    -      -       -      +
     64C  VAL*     3.2    38.4    +      -       +      -
     69C  VAL*     3.8     8.6    -      -       +      +
     70C  ILE*     1.3    77.5    -      -       -      +
     72C  GLU*     1.3    59.2    +      -       -      +
     73C  PHE*     3.9    19.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 72 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     94B  GLY      3.6     1.2    -      -       -      +
     95B  MET*     3.3     7.8    -      -       -      +
     96B  SER*     2.8    74.7    +      -       -      +
     97B  GLY*     3.7    14.5    +      -       -      +
     98B  HIS*     4.0    13.1    -      -       -      -
     61C  THR*     3.8    20.0    -      -       +      +
     62C  THR      3.4     3.6    -      -       -      +
     63C  LEU*     3.8    22.0    -      -       +      +
     70C  ILE*     4.8     7.1    -      -       +      +
     71C  LEU*     1.3    75.1    -      -       -      +
     73C  PHE*     1.3    66.5    +      -       -      +
     74C  SER      4.2     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with PHE 73 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     62B  THR      5.4     0.2    -      -       -      -
     71B  LEU*     3.4    30.1    -      -       +      -
     72B  GLU      3.9    11.4    -      -       -      -
     73B  PHE*     3.2    45.3    -      +       +      -
     94B  GLY      3.8     4.3    -      -       -      +
     95B  MET*     4.2    11.4    -      -       +      -
     60C  VAL      3.3     2.3    -      -       -      +
     61C  THR*     3.3     3.5    -      -       -      -
     62C  THR*     2.7    46.9    +      -       -      +
     71C  LEU*     3.9    30.5    -      -       +      -
     72C  GLU*     1.3    76.4    -      -       -      +
     74C  SER*     1.3    60.6    +      -       -      +
     75C  GLY      3.7     1.1    +      -       -      +
     95C  MET*     3.5    47.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with SER 74 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     94B  GLY*     3.4    24.3    +      -       -      +
     96B  SER*     6.0     2.0    -      -       -      -
     59C  ASN*     5.2     4.9    -      -       -      +
     60C  VAL      3.2     6.3    +      -       -      -
     61C  THR*     4.0    16.7    +      -       -      -
     72C  GLU      4.2     0.4    -      -       -      -
     73C  PHE*     1.3    71.4    -      -       -      +
     75C  GLY*     1.3    57.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLY 75 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     59C  ASN*     3.5    18.3    -      -       -      +
     60C  VAL*     2.8    36.6    +      -       -      +
     62C  THR*     5.5     0.3    +      -       -      -
     73C  PHE      3.7     2.7    +      -       -      +
     74C  SER*     1.3    74.6    +      -       -      +
     76C  GLU*     1.3    66.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLU 76 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     55C  CYS      4.9    10.9    -      -       -      +
     58C  GLY*     3.7    30.1    +      -       -      +
     59C  ASN*     3.7     8.1    +      -       -      +
     75C  GLY*     1.3    73.7    -      -       -      -
     77C  LEU*     1.3    68.8    +      -       -      +
     78C  PRO*     3.2    10.6    -      -       +      +
     95C  MET*     5.1     1.0    -      -       -      +
----------------------------------------------------------
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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