Contacts of the strand formed by residues 242 - 250 (chain C) in PDB entry 2C11


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 HIS 242 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    228C  GLY*     3.9    12.1    -      -       -      -
    229C  LEU      3.6     3.1    +      -       -      -
    230C  TYR*     3.5    20.2    +      +       +      -
    240C  LEU      3.8     3.2    +      -       -      -
    241C  HIS*     1.3    77.4    -      -       -      +
    243C  VAL*     1.3    69.7    +      -       -      +
    244C  GLY*     3.2     9.5    +      -       -      -
    245C  LEU      3.6    20.4    -      -       -      -
    246C  GLU*     3.0    42.6    +      -       +      +
    291C  ILE*     3.9    18.1    -      -       -      +
    376C  SER*     5.2     0.4    +      -       -      -
    497C  SER*     3.5    10.3    +      -       -      +
    498C  ALA*     3.2    46.4    -      -       +      +
    499C  PHE*     3.7    14.1    +      -       +      +
    515C  THR*     4.1     5.0    -      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 243 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    195C  LEU*     6.3     1.1    -      -       +      -
    199C  CYS*     4.3    15.5    -      -       -      -
    208C  LEU*     4.7    11.7    -      -       +      -
    229C  LEU*     2.9    44.2    +      -       +      +
    230C  TYR*     4.2     1.1    -      -       -      -
    231C  TYR*     3.4    47.1    -      -       +      +
    241C  HIS      4.3     0.4    -      -       -      +
    242C  HIS*     1.3    73.9    +      -       -      +
    244C  GLY*     1.3    56.7    +      -       -      +
    245C  LEU*     3.1    20.3    +      -       +      +
    266C  TYR*     3.5    16.1    +      -       -      -
    267C  GLN*     3.8     6.2    +      -       -      -
    291C  ILE*     4.1    14.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLY 244 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    242C  HIS*     3.2    13.7    +      -       -      -
    243C  VAL*     1.3    76.5    -      -       -      +
    245C  LEU*     1.3    57.4    +      -       -      +
    246C  GLU*     3.9     0.6    +      -       -      -
    265C  PHE*     3.2    14.6    -      -       -      +
    266C  TYR*     3.8     0.9    -      -       -      -
    267C  GLN*     2.8    33.0    +      -       -      -
    499C  PHE*     3.4    31.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 245 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    188C  LEU*     4.4    15.3    -      -       +      -
    194C  LEU*     6.6     0.2    -      -       +      -
    195C  LEU*     5.1    13.9    -      -       +      -
    208C  LEU*     6.4     1.1    -      -       +      -
    228C  GLY*     3.6     0.5    -      -       -      -
    229C  LEU*     2.9    52.2    +      -       +      +
    242C  HIS*     3.6     1.3    -      -       -      -
    243C  VAL*     3.0    16.5    -      -       +      +
    244C  GLY*     1.3    79.1    -      -       -      +
    246C  GLU*     1.3    62.9    +      -       -      +
    247C  LEU*     4.0     9.4    -      -       +      -
    264C  VAL*     3.4    27.4    -      -       +      -
    265C  PHE      3.1    17.3    -      -       -      +
    266C  TYR*     3.7    21.8    -      -       +      -
    274C  LEU*     4.7     6.7    -      -       +      -
    277C  LEU*     4.5     4.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 246 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    226C  TRP*     3.5    15.0    -      -       +      -
    227C  PHE      3.1     7.6    -      -       -      +
    228C  GLY*     3.9     5.1    -      -       -      -
    230C  TYR*     5.4     0.3    +      -       -      -
    242C  HIS*     3.0    36.2    +      -       +      +
    244C  GLY      4.9     0.7    -      -       -      +
    245C  LEU*     1.3    73.2    -      -       -      +
    247C  LEU*     1.3    68.4    +      -       -      +
    265C  PHE*     2.7    40.1    +      -       +      +
    376C  SER*     3.2    20.9    -      -       -      -
    377C  PRO*     3.0    34.5    -      -       -      +
    378C  ALA*     3.3    22.5    +      -       +      +
    379C  ALA*     4.3     0.9    +      -       -      +
    498C  ALA*     4.8     0.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 247 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    183C  ILE*     4.1    29.6    -      -       +      -
    187C  GLU*     5.8     0.9    -      -       +      -
    188C  LEU*     4.7     4.3    -      -       +      -
    225C  THR      3.5     1.2    -      -       -      +
    226C  TRP*     3.0    11.1    -      -       -      -
    227C  PHE*     2.6    43.5    +      -       +      +
    229C  LEU*     3.4    27.1    -      -       +      -
    245C  LEU*     4.0     8.7    -      -       +      -
    246C  GLU*     1.3    76.2    -      -       -      +
    248C  LEU*     1.3    60.1    +      -       -      +
    249C  VAL*     3.7    10.0    +      -       +      -
    261C  ILE*     4.2    17.3    -      -       +      -
    263C  LYS      4.1     0.9    -      -       -      -
    264C  VAL*     3.3    34.5    -      -       +      -
    274C  LEU*     4.1    17.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 248 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    224C  ALA*     3.2    27.6    -      -       +      +
    225C  THR      3.2    16.6    -      -       -      +
    226C  TRP*     3.3    43.5    -      -       +      +
    247C  LEU*     1.3    72.2    -      -       -      +
    249C  VAL*     1.3    60.6    +      -       -      +
    250C  ASN      3.6     0.3    +      -       -      -
    261C  ILE*     3.2     4.9    -      -       -      +
    262C  GLN*     2.9    48.0    +      -       +      +
    263C  LYS*     3.0    29.8    +      -       +      +
    553D  TRP*     4.0    19.3    -      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 249 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    179C  ILE*     4.1    24.9    -      -       +      -
    182C  MET*     4.4    16.2    -      -       -      -
    183C  ILE*     4.5    13.0    -      -       +      -
    224C  ALA*     3.3     1.9    -      -       -      -
    225C  THR      2.9    22.7    +      -       -      +
    227C  PHE*     4.3    20.4    -      -       +      -
    247C  LEU*     3.7     7.4    +      -       +      -
    248C  LEU*     1.3    70.0    -      -       -      +
    250C  ASN*     1.3    61.8    +      -       -      +
    251C  HIS*     2.9    44.5    -      -       +      +
    259C  TRP*     4.9     0.2    -      -       +      -
    260C  THR      3.5     6.3    -      -       -      +
    261C  ILE*     3.7    18.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 250 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    223C  ARG      3.8     5.6    -      -       -      +
    224C  ALA*     4.1     7.6    -      -       +      +
    248C  LEU      3.6     1.0    +      -       -      -
    249C  VAL*     1.3    70.2    -      -       -      +
    251C  HIS*     1.3    56.4    +      -       -      +
    252C  LYS*     3.0    29.7    +      -       -      +
    253C  ALA*     4.6     0.9    +      -       -      +
    259C  TRP*     3.6    17.7    -      -       -      -
    260C  THR*     2.6    28.2    +      -       -      +
    262C  GLN*     2.7    44.1    -      -       +      +
----------------------------------------------------------
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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