Contacts of the strand formed by residues 201 - 212 (chain H) in PDB entry 6BCH


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 201 (chain H).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    191H  ILE*     4.6    21.1    -      -       +      -
    192H  ALA      3.1     9.4    -      -       -      +
    193H  LYS*     3.5    33.9    -      -       +      +
    194H  ASN      3.7     1.3    +      -       -      +
    197H  LEU*     3.7    13.5    -      -       -      +
    199H  THR*     3.1    22.6    +      -       -      -
    200H  GLY*     1.3    85.2    -      -       -      +
    202H  GLN*     1.3    65.9    +      -       -      +
    203H  VAL*     3.9     5.1    +      -       +      +
    293H  HIS      5.3     0.3    -      -       -      +
    299H  LEU*     3.5    37.5    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with GLN 202 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    190H  ARG      3.6     0.9    -      -       -      +
    191H  ILE*     3.4     6.1    -      -       -      +
    192H  ALA*     2.9    41.3    +      -       +      +
    194H  ASN*     4.5     5.0    +      -       +      -
    197H  LEU*     3.4    20.0    -      -       +      +
    201H  TYR*     1.3    74.3    -      -       -      +
    203H  VAL*     1.3    71.0    -      -       -      +
    204H  GLN*     3.5    20.7    -      -       +      +
      5I    T      3.4    32.0    +      -       +      +
      6I    A      2.7    50.8    +      -       -      +
      7I    A      3.5     7.3    +      -       -      -
     21J    T      3.5     8.1    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with VAL 203 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    189H  ILE*     4.1    16.4    -      -       +      -
    190H  ARG      3.5     2.2    -      -       -      +
    191H  ILE*     4.4     6.3    -      -       +      -
    201H  TYR*     3.9     6.7    +      -       +      +
    202H  GLN*     1.3    81.7    -      -       -      +
    204H  GLN*     1.3    68.1    +      -       -      +
    288H  ILE*     3.7    29.1    -      -       +      +
    293H  HIS*     4.1    33.8    -      -       +      +
    299H  LEU*     3.8    28.7    -      -       +      -
    302H  ILE*     3.8    17.3    -      -       +      -
      5I    T      4.7     6.7    +      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with GLN 204 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    189H  ILE*     3.5     4.7    -      -       -      +
    190H  ARG*     2.9    61.5    +      -       +      +
    202H  GLN*     3.5    22.2    +      -       +      +
    203H  VAL*     1.3    79.5    -      -       -      +
    205H  SER*     1.3    61.7    +      -       -      +
    206H  VAL*     3.9     5.8    +      -       +      -
    252H  THR*     4.2    17.2    +      -       +      +
    288H  ILE*     4.5     4.7    -      -       -      -
      5I    T      5.7     1.6    -      -       +      -
      6I    A      3.1    27.5    +      -       +      +
      7I    A      2.9    45.1    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with SER 205 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    189H  ILE*     3.8    16.2    -      -       -      -
    204H  GLN*     1.3    74.3    -      -       -      +
    206H  VAL*     1.3    62.4    +      -       -      +
    251H  VAL      3.8     2.6    -      -       -      +
    252H  THR*     3.9    12.6    +      -       -      +
    254H  LEU*     4.1    14.7    -      -       -      +
    257H  ILE*     3.2    29.5    -      -       -      +
    281H  TRP*     4.2     2.5    -      -       -      -
    285H  VAL*     3.6    29.4    -      -       -      +
    288H  ILE*     4.2    12.0    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with VAL 206 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    186H  SER      3.7     0.7    -      -       -      +
    187H  PHE*     3.6     0.7    -      -       -      -
    188H  TYR*     2.9    83.0    +      -       +      +
    190H  ARG*     4.1    20.4    -      -       +      +
    204H  GLN*     4.1    11.7    -      -       +      +
    205H  SER*     1.3    80.3    -      -       -      +
    207H  PHE*     1.3    71.5    +      -       -      +
    208H  GLN*     4.6     0.4    -      -       +      -
    250H  VAL*     4.0    17.9    -      -       +      -
    251H  VAL      3.6     3.1    -      -       -      +
    252H  THR*     4.2    12.6    -      -       +      -
    281H  TRP*     3.1    11.5    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with PHE 207 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    181H  THR*     4.0     5.8    -      -       +      -
    185H  GLY*     4.8     0.2    -      -       -      -
    186H  SER      3.4     7.9    -      -       -      -
    187H  PHE*     3.3    39.3    -      +       -      -
    206H  VAL*     1.3    75.9    -      -       -      +
    208H  GLN*     1.3    75.6    +      -       -      +
    209H  ILE*     3.8    33.0    -      -       +      -
    226H  LEU*     4.5     6.7    -      -       +      -
    249H  LEU*     3.8    10.5    -      -       +      +
    250H  VAL*     3.5     2.3    -      -       -      -
    251H  VAL*     2.9    56.7    +      -       +      +
    257H  ILE*     5.0     1.1    -      -       +      -
    261H  ILE*     4.2    22.9    -      -       +      -
    265H  PHE*     3.9    18.8    -      +       -      -
    281H  TRP*     3.9    18.3    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with GLN 208 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    184H  GLU      4.2     0.4    -      -       -      +
    185H  GLY*     3.3     0.7    -      -       -      -
    186H  SER*     2.9    39.4    +      -       -      +
    188H  TYR*     3.0    40.7    +      -       +      +
    206H  VAL*     4.6     1.6    -      -       +      -
    207H  PHE*     1.3    80.4    -      -       -      +
    209H  ILE*     1.3    73.6    +      -       -      +
    210H  THR*     3.8    13.9    +      -       -      +
    232H  ARG*     5.2     2.8    -      -       -      +
    248H  ASP*     2.8    35.4    +      -       +      +
    249H  LEU      3.2    10.5    -      -       -      +
    250H  VAL*     4.5     8.1    -      -       +      +
     16J    G      4.9     0.5    -      -       -      -
     17J    A      3.1    27.7    +      -       -      +
     18J    C      4.8     1.4    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ILE 209 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    180H  PHE*     3.9    31.2    -      -       +      +
    181H  THR*     3.7    25.6    -      -       +      -
    184H  GLU*     4.0    15.7    -      -       +      -
    185H  GLY*     4.2     8.1    -      -       -      -
    207H  PHE*     3.8    20.0    -      -       +      -
    208H  GLN*     1.3    80.4    -      -       -      +
    210H  THR*     1.3    68.4    +      -       -      +
    211H  GLN*     5.6     0.2    -      -       +      -
    219H  MET*     3.6    13.6    -      -       +      +
    222H  LEU*     5.1    10.3    -      -       +      -
    226H  LEU*     5.5     4.0    -      -       +      -
    248H  ASP*     3.3     3.8    -      -       -      -
    249H  LEU*     2.9    52.9    +      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with THR 210 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    184H  GLU*     3.8    21.3    +      -       -      +
    208H  GLN*     3.8     7.8    +      -       -      +
    209H  ILE*     1.3    78.3    -      -       -      +
    211H  GLN*     1.3    77.7    +      -       -      +
    219H  MET*     5.0     0.2    -      -       -      -
    246H  CYS*     4.2    23.8    -      -       +      -
    247H  VAL      3.5     6.1    -      -       -      +
    248H  ASP*     2.5    24.1    +      -       -      +
     15J    C      4.3    19.4    -      -       +      +
     16J    G      3.7    33.3    -      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLN 211 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     27H  ASP      4.8     3.4    +      -       -      -
    106H  THR*     4.5    11.5    -      -       -      +
    180H  PHE*     4.3    18.8    -      -       +      -
    184H  GLU*     3.1    27.8    +      -       -      +
    209H  ILE*     5.6     0.2    -      -       +      -
    210H  THR*     1.3    84.3    -      -       -      +
    212H  ASP*     1.3    74.2    +      -       +      +
    215H  ASP*     4.5    24.1    +      -       +      +
    219H  MET*     4.4    20.4    -      -       +      -
    246H  CYS*     4.3     4.9    -      -       -      -
    247H  VAL*     2.8    35.2    +      -       -      +
     15J    C      3.9    12.9    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ASP 212 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    211H  GLN*     1.3    86.2    -      -       +      +
    213H  THR*     1.3    56.4    +      -       -      +
    214H  ARG*     2.6    24.0    +      -       +      +
    215H  ASP      3.8     6.2    +      -       -      -
    216H  ILE*     4.9     0.2    -      -       -      +
    245H  THR      3.7    10.5    -      -       -      +
    246H  CYS*     4.2     5.5    -      -       -      -
    247H  VAL*     5.0     0.7    -      -       -      +
     14J    A      4.8     7.6    -      -       -      -
     15J    C      2.9    26.6    +      -       -      +
----------------------------------------------------------
 Back to top of page


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