Contacts of the strand formed by residues 193 - 202 (chain C) in PDB entry 5I75


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 193 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    123C  LYS*     6.0     3.9    -      -       -      -
    125C  GLU*     3.8    18.4    +      -       -      +
    158C  ASN      3.4     1.4    +      -       -      -
    159C  PHE*     2.8    50.5    +      -       +      +
    160C  TYR*     3.4    36.5    +      +       -      -
    161C  PRO*     4.2     1.1    -      -       +      -
    162C  LYS*     3.9    41.5    -      -       +      -
    183C  TRP*     5.9     1.8    -      -       +      -
    184C  THR*     3.6    22.2    -      -       -      +
    185C  ASP*     4.7     2.7    -      -       -      -
    186C  GLN*     3.2    47.1    +      -       +      +
    192C  THR*     1.3    71.0    -      -       -      +
    194C  SER*     1.3    68.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 194 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    189B  HIS*     3.4    28.6    +      -       -      -
    191B  PHE*     4.1     9.4    -      -       -      -
    156C  LEU      3.3    12.1    -      -       -      -
    157C  ASN*     3.8     6.4    -      -       -      -
    158C  ASN      3.4    12.8    +      -       -      -
    159C  PHE*     3.6     3.4    -      -       -      -
    183C  TRP*     3.8     1.5    -      -       -      +
    184C  THR*     2.8    42.4    +      -       -      +
    192C  THR      4.1     3.3    +      -       -      -
    193C  TYR*     1.3    81.4    +      -       -      +
    195C  MET*     1.3    61.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with MET 195 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    191B  PHE*     3.3    11.1    -      -       -      -
    156C  LEU*     2.9    51.8    +      -       +      +
    159C  PHE*     3.7     6.5    -      -       +      -
    164C  ILE*     3.6    19.7    -      -       -      -
    166C  VAL*     3.7    22.2    -      -       +      -
    181C  ASN*     3.6    44.0    -      -       +      +
    182C  SER      3.0    13.0    -      -       -      +
    183C  TRP*     3.1    38.4    -      -       +      +
    194C  SER*     1.3    74.5    -      -       -      +
    196C  SER*     1.3    64.3    +      -       -      +
    197C  SER      4.8     0.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with SER 196 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    191B  PHE*     3.5    28.7    -      -       -      +
    203B  SER*     4.0     5.6    +      -       -      -
    154C  CYS      3.8     4.3    -      -       -      -
    155C  PHE*     3.7    19.7    -      -       -      -
    180C  LEU      3.0     5.9    -      -       -      +
    181C  ASN*     4.4     0.9    -      -       -      -
    182C  SER*     2.9    43.5    +      -       -      -
    195C  MET*     1.3    78.4    -      -       -      +
    197C  SER*     1.3    60.5    +      -       -      +
    198C  THR*     3.9     6.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with SER 197 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    153C  VAL*     3.9     1.4    -      -       -      +
    154C  CYS*     2.9    41.7    +      -       -      +
    156C  LEU*     4.3     4.6    -      -       -      +
    166C  VAL*     3.5    17.0    -      -       -      +
    168C  TRP*     2.3    40.9    +      -       -      -
    179C  VAL*     3.4     3.6    -      -       -      +
    180C  LEU      3.3     4.7    -      -       -      -
    181C  ASN*     3.2    20.7    +      -       -      -
    195C  MET      4.3     0.6    -      -       -      -
    196C  SER*     1.3    71.4    -      -       -      +
    198C  THR*     1.3    58.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 198 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    166B  LEU*     5.6    10.2    -      -       +      +
    201B  THR*     6.1     4.5    -      -       +      -
    203B  SER*     5.1     5.7    +      -       -      -
    151C  SER*     4.6     9.9    -      -       -      -
    152C  VAL      4.1     3.4    -      -       -      +
    153C  VAL*     4.8    15.0    -      -       +      +
    168C  TRP*     4.2     1.6    -      -       -      -
    178C  GLY      2.9    13.5    -      -       -      +
    179C  VAL*     3.2     3.0    -      -       -      -
    180C  LEU*     2.9    38.9    +      -       +      +
    196C  SER*     4.5     9.5    +      -       -      -
    197C  SER*     1.3    74.8    +      -       -      +
    199C  LEU*     1.3    63.0    +      -       -      +
    200C  THR*     3.5    21.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 199 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    150C  ALA      4.2     0.2    -      -       -      +
    151C  SER*     3.2     3.3    -      -       -      -
    152C  VAL*     2.9    49.6    +      -       +      +
    168C  TRP*     3.6    35.8    -      -       +      -
    170C  ILE*     4.1    24.0    -      -       +      -
    175C  ARG*     3.9     9.9    -      -       +      -
    177C  ASN      3.6    24.2    -      -       -      +
    178C  GLY*     3.3     7.9    -      -       -      +
    179C  VAL*     3.8    13.5    -      -       +      -
    198C  THR*     1.3    71.4    -      -       -      +
    200C  THR*     1.3    60.5    +      -       -      +
    201C  LEU*     3.7    23.0    +      -       +      +
    212C  TYR*     4.8     6.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 200 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    168B  LYS*     6.1     6.3    -      -       +      -
    196B  GLN*     5.8     2.1    +      -       -      -
    144C  GLN*     5.6     0.9    -      -       -      +
    151C  SER*     3.3    21.2    +      -       -      +
    178C  GLY*     3.2    19.5    +      -       -      +
    180C  LEU*     5.9     2.4    -      -       -      +
    198C  THR*     3.5    18.0    -      -       -      +
    199C  LEU*     1.3    69.9    -      -       -      +
    201C  LEU*     1.3    76.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 201 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    149C  GLY*     4.0     1.6    -      -       -      -
    150C  ALA      2.7    40.8    +      -       -      +
    152C  VAL*     6.0     2.2    -      -       +      -
    170C  ILE*     4.1    23.1    -      -       +      -
    175C  ARG*     4.5    18.4    -      -       -      +
    177C  ASN      4.9     2.0    -      -       -      +
    178C  GLY*     5.7     0.7    -      -       -      -
    199C  LEU*     3.7    27.1    +      -       +      +
    200C  THR*     1.3    88.7    -      -       -      +
    202C  THR*     1.3    67.4    +      -       -      +
    205C  GLU*     4.0    29.2    -      -       +      +
    206C  TYR*     5.4     4.3    -      -       +      +
    209C  HIS*     6.3     0.9    -      -       +      -
    212C  TYR*     4.6    17.0    -      -       +      +
----------------------------------------------------------
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Residues in contact with THR 202 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    148C  GLY      4.9     2.9    -      -       -      -
    149C  GLY*     4.7     3.1    -      -       -      -
    150C  ALA      4.3     1.6    -      -       -      +
    201C  LEU*     1.3    79.5    -      -       -      +
    203C  LYS*     1.3    60.8    +      -       -      +
    204C  ASP*     4.0     7.8    +      -       -      +
    205C  GLU*     3.4    27.8    +      -       -      +
    206C  TYR*     3.0    29.0    +      -       -      +
----------------------------------------------------------
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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