Contacts of the strand formed by residues 770 - 772 (chain A) in PDB entry 2HHW


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 ARG 770 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    400A  LEU      4.5     5.2    +      -       -      +
    401A  LEU      5.0     1.3    -      -       -      +
    403A  PRO*     3.5    27.0    -      -       -      +
    468A  ASN*     3.7    47.9    +      -       -      +
    470A  GLN*     3.6    18.7    -      -       -      +
    612A  GLN      4.9     0.7    -      -       -      +
    762A  TYR*     3.7    58.0    +      -       +      -
    763A  VAL      3.5     4.0    -      -       -      +
    764A  THR*     4.3     7.2    -      -       +      +
    765A  THR*     5.9     0.2    -      -       -      -
    768A  HIS      3.6     1.4    +      -       -      +
    769A  ARG*     1.3    82.4    -      -       -      +
    771A  ARG*     1.3    66.1    +      -       -      +
    772A  TYR*     2.9    43.4    +      -       +      -
    794A  THR*     5.9     0.7    -      -       -      -
    472D  ARG*     4.6     9.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 771 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    403A  PRO*     4.9     4.5    -      -       +      -
    404A  ALA*     6.4     1.3    -      -       +      -
    612A  GLN*     3.4    56.2    +      -       +      +
    613A  THR*     4.1     6.9    -      -       -      +
    762A  TYR*     3.2     4.6    -      -       -      -
    763A  VAL*     3.0    36.8    +      -       +      +
    770A  ARG*     1.3    76.6    -      -       -      +
    772A  TYR*     1.3    70.2    +      -       -      +
    773A  LEU*     4.1    13.6    -      -       +      +
    790A  MET*     3.3    28.5    -      -       -      +
    794A  THR*     2.8    43.4    +      -       +      -
      5C    G      2.9    30.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 772 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    401A  LEU      3.4    24.7    +      -       -      -
    402A  ASP*     3.8    30.0    +      -       +      +
    404A  ALA*     5.5     8.1    -      -       +      +
    464A  GLU*     5.4     2.6    +      -       -      -
    468A  ASN*     4.4     5.9    +      -       -      -
    761A  GLY      3.5     8.5    -      -       -      +
    762A  TYR*     3.5    24.0    -      +       +      -
    770A  ARG*     2.9    37.0    +      -       +      -
    771A  ARG*     1.3    79.9    +      -       -      +
    773A  LEU*     1.3    69.5    +      -       -      +
    774A  PRO*     3.6    14.6    -      -       +      +
    472D  ARG*     3.7    27.4    +      -       -      -
----------------------------------------------------------
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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