Contacts of the strand formed by residues 463 - 468 (chain A) in PDB entry 2I91


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 ILE 463 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    369A  LYS*     4.8     0.4    -      -       +      -
    370A  ARG      3.2     4.1    +      -       -      +
    371A  PHE*     3.5    33.7    -      -       +      -
    372A  LEU      2.9    25.0    +      -       -      -
    461A  ALA*     3.8     0.5    -      -       -      +
    462A  ASP*     1.3    95.6    -      -       +      +
    464A  PHE*     1.3    80.4    +      -       -      +
    465A  ILE*     3.9    11.9    -      -       +      -
    495A  LYS*     3.5    35.9    -      -       +      +
    497A  ILE*     4.1    14.4    -      -       +      -
    533A  PHE*     5.2     2.5    -      -       +      -
    534A  THR*     3.6    34.1    -      -       +      +
----------------------------------------------------------
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Residues in contact with PHE 464 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    372A  LEU*     3.5    22.9    -      -       +      +
    450A  PRO*     4.8     1.6    -      -       +      -
    451A  MET*     3.3    51.8    -      -       +      -
    454A  ALA*     3.7    22.2    -      -       +      -
    461A  ALA*     3.3    27.6    -      -       +      -
    463A  ILE*     1.3    87.1    -      -       -      +
    465A  ILE*     1.3    63.0    +      -       -      +
    466A  VAL*     4.1     3.1    -      -       +      -
    483A  LEU*     3.9    15.9    -      -       +      -
    486A  TYR*     3.8    22.0    -      +       -      -
    494A  ALA*     4.9     1.1    -      -       +      -
    495A  LYS      3.1    10.2    +      -       -      +
    496A  LEU*     3.6    15.9    -      -       +      +
    497A  ILE*     2.8    28.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 465 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    371A  PHE*     4.6     4.9    -      -       +      -
    372A  LEU      2.9     7.3    +      -       -      -
    373A  LEU*     3.5    24.1    -      -       +      -
    374A  ALA*     2.8    28.2    +      -       -      +
    403A  VAL*     4.2    12.6    -      -       +      -
    463A  ILE*     3.9    12.6    -      -       +      -
    464A  PHE*     1.3    77.1    -      -       -      +
    466A  VAL*     1.3    62.7    +      -       -      +
    467A  PHE*     3.3    33.4    +      -       +      -
    497A  ILE*     3.3    16.8    -      -       +      +
    499A  CYS*     4.4     8.5    -      -       +      -
    530A  ILE*     3.8    39.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 466 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    372A  LEU*     6.3     0.2    -      -       +      -
    374A  ALA*     3.4    10.8    -      -       +      -
    415A  PHE*     3.8    30.3    -      -       +      -
    447A  CYS*     5.1     2.0    -      -       -      +
    450A  PRO*     4.5    13.5    -      -       +      -
    451A  MET*     4.7     9.0    -      -       +      -
    464A  PHE*     4.9     1.8    -      -       +      -
    465A  ILE*     1.3    78.5    -      -       -      +
    467A  PHE*     1.3    61.7    +      -       -      +
    468A  THR*     3.3    25.5    +      -       +      +
    496A  LEU*     3.8    22.7    -      -       +      -
    497A  ILE      3.0     8.2    +      -       -      +
    498A  VAL*     3.7     7.7    -      -       +      -
    499A  CYS      2.9    25.9    +      -       -      -
    508A  ILE*     4.6     9.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with PHE 467 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    373A  LEU*     4.6     5.4    -      -       +      -
    374A  ALA      2.8    23.4    +      -       -      +
    375A  ILE*     4.6     2.5    -      -       +      -
    376A  ASP*     3.0    26.8    +      -       -      +
    381A  MET*     4.0     5.5    -      -       -      +
    396A  ALA*     3.4    30.0    -      -       +      +
    399A  MET*     3.3    33.9    -      -       +      -
    400A  CYS*     3.9    31.6    -      -       +      -
    403A  VAL*     4.9     9.4    -      -       +      -
    465A  ILE*     3.3    31.6    -      -       +      -
    466A  VAL*     1.3    68.9    -      -       -      +
    468A  THR*     1.3    59.2    +      -       -      +
    499A  CYS*     3.4    35.7    -      -       +      +
    501A  MET*     4.2     5.8    -      -       -      -
    519A  ILE*     6.2     0.2    -      -       +      -
    530A  ILE*     5.8     0.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 468 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    376A  ASP*     2.7    28.2    +      -       -      -
    381A  MET*     4.4     0.7    -      -       -      -
    447A  CYS*     3.4    10.9    -      -       -      -
    466A  VAL*     3.8    22.4    -      -       +      -
    467A  PHE*     1.3    75.4    -      -       -      +
    469A  ASP*     1.3    68.4    +      -       -      +
    470A  CYS*     3.0    19.9    +      -       -      +
    498A  VAL*     3.9    24.0    -      -       +      -
    499A  CYS      3.2     8.6    +      -       -      +
    500A  ALA*     3.5     4.5    -      -       -      -
    501A  MET*     3.1    27.6    +      -       -      +
    508A  ILE*     4.3     6.3    -      -       +      -
----------------------------------------------------------
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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