Contacts of the strand formed by residues 181 - 190 (chain C) in PDB entry 2ZUQ


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 TYR 181 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    150C  GLY      3.3    13.3    +      -       -      -
    151C  TYR*     2.8    52.4    +      +       +      +
    152C  PHE*     3.6    32.8    -      +       -      -
    154C  GLU*     3.6    45.0    -      -       +      +
    174C  ALA*     3.9     9.0    -      -       +      -
    175C  VAL      3.1    19.1    -      -       -      -
    176C  LEU*     4.4    25.6    -      -       +      +
    179C  ASP*     5.4     3.1    -      -       -      -
    180C  LEU*     1.3    72.6    -      -       -      +
    182C  THR*     1.3    67.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 182 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    203B  THR*     5.5    10.1    -      -       +      +
    147C  LEU*     5.0    11.2    -      -       +      -
    148C  VAL      3.3    11.4    -      -       -      +
    149C  LYS*     3.4    23.8    +      -       +      +
    150C  GLY      3.1    14.4    +      -       -      -
    151C  TYR*     4.7     0.4    -      -       -      -
    173C  PRO      4.7     0.3    -      -       -      +
    174C  ALA*     3.4     2.1    -      -       -      -
    175C  VAL*     3.2    32.5    +      -       -      +
    177C  GLN*     2.7    27.5    +      -       -      -
    181C  TYR*     1.3    79.9    +      -       -      +
    183C  LEU*     1.3    65.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 183 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    147C  LEU*     3.9     3.4    -      -       -      -
    148C  VAL*     2.7    49.5    +      -       +      +
    151C  TYR*     4.1    11.7    -      -       +      +
    154C  GLU*     5.1     2.7    -      -       -      +
    156C  VAL*     4.4    15.0    -      -       +      -
    158C  LEU*     3.7    29.4    -      -       +      -
    171C  THR*     3.9    13.9    -      -       +      +
    172C  PHE      3.3    24.7    -      -       -      +
    173C  PRO*     4.8     1.3    -      -       +      -
    174C  ALA*     3.7    24.9    -      -       +      +
    182C  THR*     1.3    76.0    -      -       -      +
    184C  SER*     1.3    63.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 184 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    158B  VAL*     5.5     1.1    -      -       -      -
    160B  PHE*     3.7    15.7    -      -       -      -
    201B  SER*     2.7    28.9    +      -       -      -
    203B  THR*     5.0     5.4    -      -       -      -
    146C  CYS      3.5     5.2    -      -       -      -
    147C  LEU*     3.8    19.3    -      -       -      -
    171C  THR*     3.8     6.6    -      -       -      +
    172C  PHE*     3.0    31.9    +      -       -      +
    183C  LEU*     1.3    76.5    -      -       -      +
    185C  SER*     1.3    64.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 185 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    160B  PHE*     3.7     4.8    -      -       -      -
    145C  GLY*     3.0     6.1    -      -       -      -
    146C  CYS      2.7    37.7    +      -       -      -
    158C  LEU*     3.3    32.0    -      -       -      +
    160C  TRP*     2.9    31.3    +      -       -      -
    170C  HIS      3.4     5.3    +      -       -      -
    171C  THR*     3.5    16.4    +      -       -      -
    184C  SER*     1.3    77.3    -      -       -      +
    186C  SER*     1.3    59.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 186 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    160B  PHE*     3.5    34.5    -      -       -      -
    162B  ASN*     2.9    32.1    +      -       -      -
    143C  THR*     5.2     2.5    -      -       -      -
    144C  LEU      3.6     5.4    -      -       -      -
    169C  VAL*     3.2     9.4    -      -       -      +
    170C  HIS*     2.8    39.4    +      -       -      +
    172C  PHE*     3.8     5.5    -      -       -      -
    185C  SER*     1.3    75.0    -      -       -      +
    187C  VAL*     1.3    61.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 187 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    142C  VAL      4.1     0.3    -      -       -      +
    143C  THR*     4.2     2.2    -      -       -      -
    144C  LEU*     3.0    41.1    +      -       +      +
    160C  TRP*     3.6    43.5    -      -       +      -
    165C  LEU*     3.9    26.5    -      -       +      -
    167C  SER      5.7     1.6    -      -       -      +
    168C  GLY      3.4    17.5    -      -       -      +
    169C  VAL*     4.0    11.4    -      -       +      -
    186C  SER*     1.3    75.1    -      -       -      +
    188C  THR*     1.3    70.8    +      -       -      +
    189C  VAL*     5.8     0.7    -      -       +      -
    199C  ILE*     4.8     2.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 188 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    162B  ASN*     3.7    16.3    +      -       -      +
    163B  ASN*     5.6     1.0    +      -       -      -
    141C  SER*     3.9    24.9    -      -       -      +
    142C  VAL      3.4     4.0    -      -       -      -
    143C  THR*     3.4    26.4    -      -       +      +
    167C  SER      5.3     1.7    -      -       -      +
    168C  GLY*     3.1    17.0    +      -       -      +
    170C  HIS*     5.9     0.2    -      -       -      -
    186C  SER*     4.8     1.2    +      -       -      -
    187C  VAL*     1.3    86.7    -      -       -      +
    189C  VAL*     1.3    81.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 189 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    141C  SER*     4.4     3.1    -      -       -      -
    142C  VAL*     2.7    39.2    +      -       -      +
    144C  LEU*     5.2     4.0    -      -       +      -
    165C  LEU*     5.1    17.7    -      -       +      -
    167C  SER      5.9     2.5    -      -       -      +
    187C  VAL*     5.4     1.3    -      -       +      +
    188C  THR*     1.3    85.1    -      -       -      +
    190C  THR*     1.3    73.7    +      -       -      +
    193C  THR*     3.1    32.3    -      -       +      +
    194C  TRP*     4.5     5.2    -      -       +      +
    199C  ILE*     3.9    23.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 190 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    140C  SER      4.0     8.5    -      -       -      +
    141C  SER*     4.6     4.4    +      -       -      +
    189C  VAL*     1.3    78.8    -      -       -      +
    191C  SER*     1.3    61.0    +      -       -      +
    192C  SER*     3.0    17.9    -      -       -      +
    193C  THR*     2.9    39.5    +      -       +      +
    194C  TRP*     3.2    10.7    +      -       -      +
----------------------------------------------------------
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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