Contacts of the strand formed by residues 182 - 192 (chain H) in PDB entry 4BEI


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 GLY 182 (chain H).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    177H  VAL*     3.8    21.4    -      -       -      +
    181H  GLY*     1.3    74.5    -      -       -      -
    183H  PHE*     1.3    57.3    +      -       -      -
    237H  ASN*     3.5     6.7    +      -       -      +
    238H  PHE*     2.7    43.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 183 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    100G  GLN*     4.9    13.9    -      -       -      -
    174H  ILE*     4.5     9.7    -      -       -      +
    177H  VAL*     4.4     1.4    -      -       -      +
    182H  GLY*     1.3    74.1    -      -       -      -
    184H  VAL*     1.3    63.7    +      -       -      +
    185H  PRO*     3.9    29.9    -      -       +      +
    233H  VAL*     6.5     0.2    -      -       +      -
    235H  GLY*     3.6    32.3    -      -       -      -
    236H  ILE      3.5    13.9    -      -       -      -
    237H  ASN*     3.9    18.2    -      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 184 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    170H  ASN*     3.7    22.0    -      -       -      +
    174H  ILE*     4.0    17.3    -      -       +      +
    177H  VAL*     3.8    23.8    -      -       +      -
    183H  PHE*     1.3    78.5    -      -       -      +
    185H  PRO*     1.3    71.9    -      -       +      +
    186H  PHE*     3.5    32.6    -      -       +      -
    235H  GLY*     3.4     1.6    -      -       -      -
    236H  ILE      2.9    29.8    +      -       -      -
    238H  PHE*     4.0    18.2    -      -       +      -
    268H  VAL*     4.4     8.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with PRO 185 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    170H  ASN*     4.3     0.2    -      -       -      +
    171H  GLN*     3.2    43.2    +      -       -      +
    172H  PHE*     3.7    26.2    -      -       +      +
    174H  ILE*     4.5     7.6    -      -       +      -
    183H  PHE*     3.9    24.7    -      -       +      +
    184H  VAL*     1.3    92.8    -      -       +      +
    186H  PHE*     1.3    64.3    +      -       -      +
    233H  VAL*     4.0    11.2    -      -       +      -
    235H  GLY*     3.7     8.5    -      -       -      -
----------------------------------------------------------
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Residues in contact with PHE 186 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    168H  ILE*     4.7     2.9    -      -       +      -
    169H  LYS      3.3     8.5    -      -       -      +
    170H  ASN*     3.6    34.8    -      -       +      -
    184H  VAL*     3.5    36.1    -      -       +      -
    185H  PRO*     1.3    75.8    -      -       -      +
    187H  THR*     1.3    67.0    +      -       -      +
    188H  VAL*     3.8     2.6    +      -       +      +
    204H  MET*     4.5    16.8    -      -       +      -
    216H  VAL*     5.6     1.1    -      -       +      -
    233H  VAL*     3.4     3.9    -      -       -      -
    234H  ARG      2.8    48.2    +      -       -      +
    235H  GLY      5.1     0.2    -      -       -      -
    236H  ILE*     3.7    19.3    -      -       +      -
    249H  ILE*     3.7    28.9    -      -       +      -
    266H  MET*     4.0    26.9    -      -       +      -
    268H  VAL*     4.1     7.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 187 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    167H  ASP      3.5     2.1    +      -       -      +
    168H  ILE*     3.3     7.1    -      -       -      +
    169H  LYS*     2.9    51.6    +      -       -      +
    171H  GLN*     3.7    36.7    -      -       +      +
    186H  PHE*     1.3    72.6    -      -       -      +
    188H  VAL*     1.3    62.2    +      -       -      +
    189H  ASP*     4.4    10.7    +      -       -      -
    232H  LYS      3.7     4.5    -      -       -      -
    233H  VAL*     4.4    11.0    -      -       +      +
----------------------------------------------------------
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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
----------------------------------------------------------
    167H  ASP      3.6     2.0    -      -       -      -
    168H  ILE*     4.1    16.2    -      -       +      -
    186H  PHE      4.1     9.6    -      -       -      +
    187H  THR*     1.3    79.3    -      -       -      +
    189H  ASP*     1.3    66.2    +      -       -      +
    190H  LEU*     3.7    23.1    -      -       +      -
    202H  PHE*     4.0    20.6    -      -       +      -
    204H  MET*     4.2    21.1    -      -       +      -
    230H  TYR*     4.7    10.3    -      -       +      -
    231H  SER*     3.3     4.2    -      -       -      -
    232H  LYS*     2.8    46.2    +      -       +      +
    234H  ARG*     4.4    10.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASP 189 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    165H  THR*     3.8     1.7    -      -       -      +
    166H  ILE*     3.6     1.2    -      -       -      -
    167H  ASP*     2.7    59.0    +      -       +      +
    169H  LYS*     5.5     2.4    +      -       -      -
    187H  THR*     4.4     9.7    +      -       -      -
    188H  VAL*     1.3    81.0    +      -       -      +
    190H  LEU*     1.3    63.3    +      -       -      +
    191H  ASN*     3.9     4.1    +      -       +      +
    229H  THR*     4.2     6.0    +      -       -      +
    230H  TYR      3.5     2.0    -      -       -      -
    231H  SER*     2.6    30.9    +      -       -      -
    232H  LYS      5.3     0.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 190 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    164H  LEU*     4.4     5.6    -      -       +      -
    165H  THR      3.4     4.3    -      -       -      +
    166H  ILE*     4.2    30.1    -      -       +      -
    168H  ILE*     4.7     2.5    -      -       +      -
    188H  VAL*     3.7    21.8    -      -       +      -
    189H  ASP*     1.3    79.3    -      -       -      +
    191H  ASN*     1.3    60.6    +      -       -      +
    192H  ASN      3.8     1.7    +      -       -      -
    200H  VAL*     4.6     9.9    -      -       +      -
    202H  PHE*     4.3    23.6    -      -       +      -
    222H  TRP*     5.9     1.1    -      -       +      -
    224H  ILE*     4.2    18.6    -      -       +      +
    228H  ASP      4.1     0.2    -      -       -      +
    229H  THR*     3.4     4.7    +      -       -      -
    230H  TYR*     2.9    59.1    +      -       +      +
    253H  VAL*     4.4    11.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 191 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    163H  GLY      3.5     0.5    -      -       -      +
    164H  LEU*     3.5     2.7    -      -       -      -
    165H  THR*     2.8    54.5    +      -       +      +
    189H  ASP*     3.9     4.6    -      -       +      +
    190H  LEU*     1.3    72.2    -      -       -      +
    192H  ASN*     1.3    61.3    +      -       -      +
    193H  GLY      3.2     5.8    +      -       -      +
    228H  ASP      4.0     5.2    -      -       -      +
    229H  THR*     4.6     9.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASN 192 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    164H  LEU*     3.5    12.3    -      -       +      +
    190H  LEU      3.8     0.8    +      -       -      -
    191H  ASN*     1.3    69.3    -      -       -      +
    193H  GLY*     1.3    56.5    +      -       -      +
    194H  ARG*     3.0    30.0    +      -       -      +
    196H  GLY      3.2    18.9    +      -       -      -
    198H  ALA*     3.4    14.8    -      -       -      +
    224H  ILE*     2.8    45.1    +      -       +      -
    225H  ALA      3.2    12.7    +      -       -      +
    226H  SER*     3.9     1.8    -      -       -      +
    227H  GLY*     3.0    28.8    +      -       -      -
    228H  ASP      3.1    10.0    +      -       -      +
----------------------------------------------------------
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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