Contacts of the strand formed by residues 143 - 149 (chain C) in PDB entry 6PSI


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 143 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     61C  GLU*     4.5     6.7    -      -       -      +
     62C  LYS*     3.3    29.0    -      -       -      +
     65C  ILE*     4.1    18.4    -      -       -      +
     79C  PRO*     3.8    15.7    -      -       +      +
     82C  GLY      3.8    18.2    -      -       -      +
     83C  TYR*     3.3    42.0    -      -       -      +
     84C  ASP*     2.8    42.9    +      -       +      +
     85C  PHE*     4.7     2.2    -      -       -      -
    101C  PHE*     4.7     5.1    -      -       -      -
    119C  LEU*     5.7     3.8    -      -       +      -
    138C  VAL      3.6     2.6    -      -       -      +
    139C  GLU*     3.1     3.3    +      -       -      -
    140C  VAL*     3.0    41.1    +      -       +      +
    141C  ALA*     4.3     3.1    -      -       +      +
    142C  GLY*     1.4    76.6    -      -       -      +
    144C  ARG*     1.3    61.6    +      -       -      +
    145C  VAL*     3.8     8.0    +      -       +      +
    165C  GLY      5.8     0.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 144 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    179B  ALA      5.6     3.4    +      -       -      -
     60C  PRO*     4.2    25.3    +      -       -      +
     61C  GLU*     3.1    59.2    +      -       +      +
     62C  LYS*     3.6     7.3    -      -       -      -
     64C  ARG*     5.7     4.2    -      -       -      +
    137C  VAL*     3.6    33.7    -      -       +      +
    138C  VAL      3.5     6.5    -      -       -      +
    139C  GLU*     3.8    22.0    -      -       +      +
    142C  GLY      4.1     1.2    +      -       -      -
    143C  ARG*     1.3    72.2    -      -       -      +
    145C  VAL*     1.3    63.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 145 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     59C  ASP*     3.5    20.6    -      -       -      +
     61C  GLU*     5.2     0.2    -      -       -      -
     62C  LYS*     3.5    12.6    -      -       -      +
     84C  ASP*     3.4    24.9    -      -       +      +
    137C  VAL*     3.6     5.6    -      -       -      -
    138C  VAL*     3.0    37.9    +      -       +      +
    140C  VAL*     5.0     6.1    -      -       +      -
    143C  ARG*     3.9    14.4    -      -       +      +
    144C  ARG*     1.3    78.9    -      -       -      +
    146C  SER*     1.4    62.2    +      -       -      +
    164C  MET*     3.3    42.6    -      -       +      +
----------------------------------------------------------
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Residues in contact with SER 146 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     19C  GLN*     5.6     0.3    +      -       -      -
     58C  SER      4.8     1.7    +      -       -      -
     59C  ASP*     2.9    43.8    +      -       -      +
     60C  PRO*     3.6    12.4    -      -       -      +
    135C  GLU      5.8     1.1    -      -       -      -
    136C  ARG*     3.6     9.2    -      -       -      -
    137C  VAL*     3.7    21.7    -      -       -      +
    145C  VAL*     1.4    76.6    -      -       -      +
    147C  VAL*     1.3    63.9    +      -       -      +
    164C  MET*     4.1     2.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 147 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    181B  LEU*     5.5     5.4    -      -       +      +
    205B  LEU*     6.5     0.4    -      -       +      -
    134C  GLY      3.3     2.8    -      -       -      +
    135C  GLU*     4.5     1.3    -      -       -      -
    136C  ARG*     3.1    34.1    +      -       -      +
    138C  VAL*     4.5    10.1    -      -       +      -
    146C  SER*     1.3    76.2    -      -       -      +
    148C  ARG*     1.3    71.7    +      -       -      +
    149C  ILE*     3.9    21.6    +      -       +      +
    161C  VAL*     3.7    28.5    -      -       +      -
    164C  MET*     3.9    24.2    -      -       +      -
    176C  LEU*     5.4     2.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 148 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    132B  SER*     3.9     2.4    +      -       -      -
    133B  THR      2.9    30.5    +      -       -      -
    134B  GLY*     4.3     5.6    -      -       -      -
    202B  GLY      4.9     2.6    -      -       -      +
    204B  ALA      4.8     0.2    -      -       -      -
    205B  LEU*     2.9    71.6    +      -       +      +
    206B  GLU*     2.9    29.9    +      -       -      +
    207B  LYS      3.6     5.7    -      -       -      +
    208B  GLY*     3.8    12.2    -      -       -      +
    361B  ILE*     5.7     2.7    -      -       -      -
    134C  GLY*     3.3    22.8    -      -       -      +
    135C  GLU*     2.9    40.0    +      -       +      +
    147C  VAL*     1.3    78.4    -      -       -      +
    149C  ILE*     1.3    66.0    +      -       -      +
    150C  PRO*     4.0     2.3    -      -       -      +
    151C  PRO*     5.9     3.3    -      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 149 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    181B  LEU*     4.7    18.4    -      -       +      -
    202B  GLY      5.3     0.4    -      -       -      -
    204B  ALA      4.3     0.7    -      -       -      -
    123C  LEU*     5.3     3.6    -      -       +      -
    125C  LEU*     5.3     7.9    -      -       +      -
    133C  GLY*     5.1     9.2    -      -       -      -
    134C  GLY      3.9    15.7    +      -       -      +
    147C  VAL*     3.7    26.3    +      -       +      +
    148C  ARG*     1.3    80.5    -      -       -      +
    150C  PRO*     1.4    77.3    -      -       +      +
    151C  PRO*     3.2    10.8    -      -       +      +
    159C  ILE*     3.8    42.8    -      -       +      -
    160C  ARG      5.0     0.9    -      -       -      +
    161C  VAL*     4.2    12.8    -      -       +      -
    176C  LEU*     4.3    11.0    -      -       +      -
----------------------------------------------------------
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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