Contacts of the strand formed by residues 175 - 181 (chain C) in PDB entry 1C7G


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 175 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    115C  GLN*     4.6     3.8    +      -       -      -
    116C  TYR*     3.4    16.4    -      -       +      +
    118C  ALA      5.0     3.8    -      -       -      +
    163C  LEU*     5.5     0.9    -      -       +      -
    166C  LEU*     4.1    26.9    -      -       +      +
    167C  ILE*     3.7    29.4    -      -       +      +
    170C  LYS*     5.3     2.0    -      -       +      -
    171C  GLY      4.0    10.8    -      -       -      +
    172C  ALA*     3.2    13.7    +      -       -      +
    173C  GLU      3.3     1.1    -      -       -      +
    174C  ASN*     1.3    80.1    -      -       -      +
    176C  ALA*     1.3    66.8    +      -       -      +
    177C  TYR*     3.9    13.6    -      -       -      +
    178C  ILE*     4.8     5.6    -      -       +      -
    209C  ILE*     3.7    46.1    -      -       +      +
    210C  LYS      5.3     0.2    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 176 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    110C  ALA*     3.5    24.5    -      -       -      +
    111C  ILE*     3.9     7.4    -      -       +      -
    115C  GLN*     3.6    24.7    -      -       +      +
    116C  TYR      2.7    15.8    +      -       -      +
    117C  VAL*     3.9    11.2    -      -       +      -
    174C  ASN      3.8     3.2    +      -       -      -
    175C  ILE*     1.3    73.9    -      -       -      +
    177C  TYR*     1.3    74.7    +      -       +      +
    210C  LYS*     3.9    11.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with TYR 177 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106C  LEU*     4.1    18.6    -      -       +      +
    107C  SER*     3.8    11.6    +      -       -      -
    110C  ALA*     3.8    22.2    -      -       +      -
    111C  ILE*     3.8    22.4    -      -       +      +
    117C  VAL*     3.6    17.3    -      -       +      -
    118C  ALA      3.5    17.7    +      -       -      -
    130C  GLN*     3.7    20.4    +      -       -      +
    175C  ILE*     3.3     7.2    -      -       -      +
    176C  ALA*     1.3    90.8    -      -       +      +
    178C  ILE*     1.3    75.8    +      -       -      +
    179C  CYS*     3.9    23.1    +      -       +      -
    209C  ILE*     4.3     2.9    -      -       -      -
    210C  LYS*     3.1    26.7    -      -       +      +
    212C  PHE*     3.6    22.4    -      +       +      -
----------------------------------------------------------
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Residues in contact with ILE 178 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    118C  ALA*     3.3    16.6    -      -       +      +
    140C  ILE*     4.8     2.5    -      -       +      -
    158C  ILE*     4.1    25.4    -      -       +      -
    163C  LEU*     3.9    33.4    -      -       +      -
    167C  ILE*     5.8     0.2    -      -       +      -
    175C  ILE*     4.8     3.1    -      -       +      -
    177C  TYR*     1.3    78.2    -      -       -      +
    179C  CYS*     1.3    61.8    +      -       -      +
    180C  LEU*     3.7     8.1    +      -       +      +
    200C  VAL*     4.4    10.5    -      -       +      -
    204C  ALA*     3.8    28.3    -      -       +      -
    209C  ILE*     3.9    17.7    -      -       +      -
    210C  LYS      2.6    11.4    +      -       -      +
    211C  ILE*     3.6    10.2    -      -       +      +
    212C  PHE      3.0    26.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with CYS 179 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106C  LEU*     6.6     0.2    -      -       -      -
    117C  VAL*     4.3     4.0    -      -       +      -
    118C  ALA      2.6    14.4    +      -       -      +
    119C  GLY*     3.1    23.1    -      -       -      -
    120C  ASN*     3.3     5.7    +      -       -      +
    121C  MET      5.1     1.7    -      -       -      +
    126C  THR*     4.7     9.2    -      -       -      -
    130C  GLN*     4.0    19.5    -      -       -      +
    137C  PHE*     5.9     1.8    -      -       +      -
    177C  TYR*     3.9    18.8    +      -       +      -
    178C  ILE*     1.3    72.8    -      -       -      +
    180C  LEU*     1.3    58.1    +      -       -      +
    181C  ALA*     3.7     2.3    +      -       -      +
    212C  PHE*     3.4    11.0    -      -       -      -
    213C  TYR      5.3     0.2    -      -       -      -
    214C  ASP*     4.3    20.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 180 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    120C  ASN*     3.4     8.3    -      -       -      +
    158C  ILE*     3.8    28.0    -      -       +      -
    178C  ILE*     3.7     4.7    +      -       +      -
    179C  CYS*     1.3    70.6    -      -       -      +
    181C  ALA*     1.3    63.0    +      -       -      +
    182C  VAL*     3.7    25.8    -      -       +      -
    192C  VAL*     4.0    12.6    -      -       +      -
    196C  ASN*     4.9     0.7    -      -       -      +
    197C  MET*     4.0    27.8    -      -       +      +
    200C  VAL*     4.2    23.6    -      -       +      -
    211C  ILE*     4.9     2.9    -      -       +      -
    212C  PHE      3.4     5.7    +      -       -      -
    213C  TYR*     3.1    35.1    -      -       +      +
    214C  ASP*     2.9    21.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 181 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    120C  ASN*     2.9    36.7    +      -       -      +
    121C  MET      5.9     1.1    -      -       -      +
    122C  TYR*     6.5     0.7    -      -       -      -
    179C  CYS*     3.7     3.8    +      -       -      +
    180C  LEU*     1.3    73.0    -      -       -      +
    182C  VAL*     1.3    67.3    +      -       -      +
    183C  THR      3.5    15.4    -      -       -      +
    184C  VAL*     4.9     3.4    -      -       +      -
    185C  ASN      5.7     0.4    -      -       -      +
    192C  VAL*     3.4     5.2    -      -       -      +
    214C  ASP*     3.5    25.6    -      -       +      +
   1000C  PLP      5.2     5.6    -      -       +      -
----------------------------------------------------------
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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