Contacts of the strand formed by residues 84 - 92 (chain G) in PDB entry 1F1H


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 THR 84 (chain G).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     14G  VAL*     4.1     0.9    -      -       -      -
     16G  PHE*     3.0    12.5    +      -       -      +
     18G  ASP*     4.0    17.2    +      -       -      +
     76G  ILE*     3.6    10.6    -      -       -      +
     77G  ASP*     3.0    31.5    +      -       +      +
     80G  PHE*     3.4    26.3    -      -       +      -
     82G  ASP      2.6    30.5    +      -       -      +
     83G  SER*     1.3    74.1    +      -       -      +
     85G  LEU*     1.3    59.1    +      -       -      +
     86G  ILE      4.1     0.2    -      -       -      -
   1489G  MPD      2.9    38.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 85 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      5G  VAL*     4.0    22.0    -      -       +      -
      8G  MET*     4.1    26.5    -      -       +      -
      9G  LEU*     3.8    21.5    -      -       +      -
     14G  VAL*     3.8    16.3    -      -       +      +
     16G  PHE      2.8     8.8    +      -       -      +
     17G  VAL*     3.1    10.8    -      -       +      +
     18G  ASP      2.7    29.0    +      -       -      -
     74G  ALA*     4.2     8.3    -      -       +      -
     75G  VAL*     3.6    30.3    -      -       -      +
     76G  ILE*     3.8    15.0    -      -       +      +
     84G  THR*     1.3    73.1    +      -       -      +
     86G  ILE*     1.3    64.0    -      -       -      +
     87G  ILE*     4.3     7.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 86 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     18G  ASP*     3.4    11.9    -      -       +      +
     20G  ARG*     3.5    60.3    -      -       +      +
     73G  THR      3.9     2.1    -      -       -      +
     74G  ALA*     3.3     2.4    -      -       -      -
     75G  VAL*     2.6    47.3    +      -       +      +
     77G  ASP*     3.5    30.5    -      -       +      +
     85G  LEU*     1.3    72.1    -      -       -      +
     87G  ILE*     1.3    72.4    +      -       -      +
     88G  ARG*     4.7     9.6    -      -       -      +
    202G  MET*     3.6    26.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 87 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      5G  VAL*     4.2    26.5    -      -       +      -
     17G  VAL*     3.9    23.8    -      -       +      -
     18G  ASP      2.9     9.7    +      -       -      +
     19G  LEU*     3.5    12.4    -      -       +      -
     20G  ARG      3.0    20.3    +      -       -      -
     38G  VAL*     5.7     0.7    -      -       +      -
     42G  PHE*     4.8     7.9    -      -       +      -
     43G  PHE*     4.6     9.9    -      -       +      -
     69G  PRO*     3.9    20.2    -      -       +      -
     70G  ASP      3.7    17.7    -      -       -      +
     71G  ALA*     4.7     2.2    -      -       -      +
     73G  THR*     3.9     2.7    -      -       -      +
     74G  ALA*     4.2    11.7    -      -       +      +
     85G  LEU*     3.9     7.8    +      -       +      -
     86G  ILE*     1.3    82.2    -      -       -      +
     88G  ARG*     1.3    73.3    +      -       -      +
     89G  CYS*     3.7     2.6    -      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 88 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     20G  ARG*     3.3    22.2    +      -       -      +
     21G  PHE*     5.1     2.9    -      -       -      +
     22G  THR*     4.9     3.4    +      -       -      -
     28G  GLU*     2.5    45.4    +      -       -      +
     70G  ASP*     3.0    26.2    +      -       -      +
     73G  THR*     2.9    30.1    +      -       +      +
     75G  VAL*     6.2     0.8    -      -       -      +
     86G  ILE*     4.7    11.1    -      -       -      +
     87G  ILE*     1.3    75.0    -      -       -      +
     89G  CYS*     1.3    63.7    +      -       -      +
    105G  ARG*     3.8    18.2    -      -       -      +
    233G  ASP*     3.4    34.7    +      -       -      +
    236G  GLN*     3.7    14.4    -      -       -      +
    237G  ILE*     3.8    29.3    -      -       -      +
    368G  TYR*     3.8     9.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with CYS 89 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     19G  LEU*     3.8    27.1    -      -       -      -
     20G  ARG      2.7    15.0    +      -       -      +
     21G  PHE*     4.0    11.0    -      -       -      +
     67G  LEU*     3.6    32.3    -      -       +      -
     68G  MET      3.3     9.9    -      -       -      +
     69G  PRO*     3.8    18.6    -      -       -      -
     70G  ASP      4.4     0.2    -      -       -      +
     87G  ILE      3.7    11.9    -      -       -      -
     88G  ARG*     1.3    80.6    -      -       -      +
     90G  ASP*     1.3    64.1    +      -       -      +
    103G  ASP*     5.6     0.3    -      -       -      +
    105G  ARG*     3.8    17.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 90 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     66G  VAL      3.4     1.9    -      -       -      +
     67G  LEU*     3.7     2.6    -      -       -      -
     68G  MET*     2.8    45.1    +      -       +      +
     70G  ASP*     4.3     4.7    -      -       -      +
     89G  CYS*     1.3    73.7    -      -       -      +
     91G  ILE*     1.3    63.7    +      -       -      +
     92G  LEU*     3.9    18.4    -      -       +      -
    103G  ASP*     3.7     7.2    -      -       -      +
    105G  ARG*     3.0    39.8    +      -       -      +
    106G  SER*     4.4     4.4    +      -       -      +
    109G  LYS*     3.1    30.4    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 91 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     21G  PHE*     3.9    23.3    -      -       +      -
     49G  PHE*     4.0    16.4    -      -       +      -
     57G  TRP*     3.7    23.8    -      -       +      -
     65G  MET*     3.7    31.6    -      -       +      -
     66G  VAL      3.4     2.5    -      -       -      +
     67G  LEU*     3.6    30.3    -      -       +      -
     90G  ASP*     1.3    72.8    -      -       -      +
     92G  LEU*     1.3    62.5    +      -       -      +
     99G  GLY*     3.7     3.3    -      -       -      -
    100G  TYR*     3.0    32.0    +      -       +      +
    103G  ASP*     2.8    33.2    +      -       +      +
----------------------------------------------------------
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Residues in contact with LEU 92 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     65G  MET*     3.4     7.5    -      -       -      +
     66G  VAL*     2.9    40.0    +      -       +      +
     68G  MET*     3.3    50.0    -      -       +      -
     90G  ASP*     4.1    15.7    -      -       +      +
     91G  ILE*     1.3    77.9    -      -       -      +
     93G  GLU*     1.3    61.4    +      -       -      +
     97G  LEU*     3.8    30.1    -      -       +      +
     98G  GLN      4.1     4.9    -      -       -      +
     99G  GLY*     3.5    25.4    -      -       -      +
    100G  TYR      4.4     0.9    -      -       -      -
    106G  SER*     4.6     2.2    -      -       -      +
----------------------------------------------------------
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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