Contacts of the strand formed by residues 183 - 192 (chain H) in PDB entry 3HI6


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 183 (chain H).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    117H  THR*     5.9     2.3    -      -       -      +
    151H  ASP*     2.9    25.5    +      -       -      -
    152H  TYR*     2.8    45.1    +      -       +      +
    153H  PHE*     4.0    25.3    -      +       -      -
    154H  PRO*     5.4     0.2    -      -       +      -
    155H  GLU*     3.7    34.8    -      -       +      +
    175H  ALA*     3.7    17.7    -      -       +      -
    176H  VAL      3.4     5.4    -      -       -      -
    177H  LEU*     3.5    52.3    -      -       +      +
    178H  GLN*     3.5     0.4    +      -       -      -
    182H  LEU*     1.3    73.9    -      -       -      +
    184H  SER*     1.3    61.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with SER 184 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    148H  LEU*     3.7    13.7    -      -       -      +
    149H  VAL      3.4     9.3    +      -       -      -
    150H  LYS*     3.6    18.9    -      -       -      +
    152H  TYR*     4.0     2.7    -      -       -      -
    174H  PRO      4.4     0.3    -      -       -      +
    175H  ALA*     3.5     0.8    -      -       -      -
    176H  VAL*     2.9    40.9    +      -       -      +
    178H  GLN*     3.6    26.2    +      -       -      -
    183H  TYR*     1.3    77.2    -      -       -      +
    185H  LEU*     1.3    64.7    +      -       -      +
    177L  THR*     6.1     0.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 185 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    148H  LEU*     3.6     7.6    -      -       -      +
    149H  VAL*     2.7    58.1    +      -       +      +
    152H  TYR*     3.4    22.4    -      -       -      +
    155H  GLU*     4.3     3.1    -      -       -      +
    157H  VAL*     3.6    17.0    -      -       +      +
    159H  VAL*     4.3     6.7    -      -       +      -
    172H  THR*     4.0    17.9    -      -       +      -
    173H  PHE*     3.5    24.9    -      -       +      +
    174H  PRO      4.0     7.9    -      -       -      +
    175H  ALA*     4.0     8.5    -      -       +      +
    184H  SER*     1.3    75.9    +      -       -      +
    186H  SER*     1.3    72.3    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 186 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    131H  LEU*     3.6    21.9    -      -       -      +
    147H  CYS      3.3     6.9    +      -       -      -
    148H  LEU*     3.6    20.1    -      -       -      +
    172H  THR*     3.8     0.5    -      -       -      -
    173H  PHE*     3.0    44.8    +      -       -      +
    185H  LEU*     1.3    75.7    -      -       -      +
    187H  SER*     1.3    59.8    +      -       -      +
    188H  VAL*     4.6     5.2    -      -       -      -
    132L  VAL*     4.2    15.8    -      -       -      +
    175L  SER*     5.1     6.1    +      -       -      -
    177L  THR*     5.1     2.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with SER 187 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    146H  GLY*     3.0     3.5    -      -       -      -
    147H  CYS*     2.8    36.3    +      -       -      -
    149H  VAL*     5.7     0.4    -      -       -      -
    159H  VAL*     3.7    24.4    -      -       -      +
    161H  TRP*     3.2    21.1    +      -       -      -
    170H  VAL*     4.1     1.9    -      -       -      +
    171H  HIS      3.3     6.1    +      -       -      -
    172H  THR*     2.7    32.2    +      -       -      +
    185H  LEU*     4.3     1.0    -      -       -      +
    186H  SER*     1.3    74.1    -      -       -      +
    188H  VAL*     1.3    61.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 188 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    131H  LEU*     4.4    17.9    -      -       +      -
    145H  LEU      3.3    10.5    -      -       -      +
    146H  GLY*     4.5     0.2    -      -       -      -
    161H  TRP*     4.7     2.7    -      -       -      -
    169H  GLY      3.7     0.8    -      -       -      +
    170H  VAL*     3.5     4.7    -      -       -      +
    171H  HIS*     2.9    53.7    +      -       +      +
    173H  PHE*     3.8    22.9    -      -       +      -
    186H  SER*     4.6     4.5    -      -       -      -
    187H  SER*     1.3    79.7    -      -       -      +
    189H  VAL*     1.3    62.9    +      -       -      +
    190H  THR*     6.2     0.9    -      -       +      -
    117L  PHE*     5.1     6.1    -      -       +      -
    132L  VAL*     5.7     3.6    -      -       +      -
    134L  LEU*     3.8    34.8    -      -       +      -
    136L  ASN*     4.8     1.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 189 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    143H  ALA      3.8     0.7    -      -       -      +
    144H  ALA*     3.5     0.9    -      -       -      -
    145H  LEU*     2.7    61.3    +      -       +      +
    161H  TRP*     4.1    17.3    -      -       +      -
    166H  LEU*     4.0    21.8    -      -       +      -
    168H  SER      3.7    13.0    -      -       -      +
    169H  GLY      3.4     9.2    -      -       -      +
    170H  VAL*     3.6    27.8    -      -       +      -
    188H  VAL*     1.3    76.1    -      -       -      +
    190H  THR*     1.3    72.6    +      -       -      +
    191H  VAL*     4.1     6.5    +      -       +      -
----------------------------------------------------------
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Residues in contact with THR 190 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    142H  THR*     4.1    14.1    -      -       -      +
    143H  ALA      3.2     6.5    -      -       -      +
    144H  ALA*     4.1    18.6    -      -       +      -
    166H  LEU*     5.6     0.3    -      -       -      +
    168H  SER      4.5     5.7    -      -       -      +
    169H  GLY*     3.5    16.8    +      -       -      +
    188H  VAL*     6.2     1.3    -      -       +      -
    189H  VAL*     1.3    84.0    -      -       -      +
    191H  VAL*     1.3    65.1    +      -       -      +
    115L  PHE*     4.6    11.2    -      -       +      -
    134L  LEU*     5.4     2.5    -      -       +      -
    136L  ASN*     3.6    27.7    +      -       -      +
    137L  ASN*     5.9     0.3    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 191 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    142H  THR*     3.2     7.0    -      -       -      -
    143H  ALA*     2.6    47.7    +      -       +      +
    145H  LEU*     4.5     7.2    -      -       +      -
    166H  LEU*     4.3     7.2    -      -       +      -
    189H  VAL*     4.2    21.5    -      -       +      -
    190H  THR*     1.3    79.7    -      -       -      +
    192H  PRO*     1.3    79.8    -      -       +      +
    195H  SER*     4.0     4.7    -      -       -      +
    196H  LEU*     4.1    13.7    -      -       +      -
    201H  TYR*     3.6    39.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with PRO 192 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    141H  SER      4.0     7.4    -      -       -      +
    142H  THR*     4.3     4.5    -      -       +      -
    191H  VAL*     1.3    92.1    -      -       +      +
    193H  SER*     1.3    60.1    +      -       -      +
    194H  SER*     4.1    14.4    -      -       -      +
    195H  SER*     2.7    38.8    +      -       -      +
    196H  LEU      4.0     0.7    +      -       -      -
    201H  TYR*     4.5     1.6    -      -       -      +
    198X  THR*     3.8    34.3    -      -       +      +
----------------------------------------------------------
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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