Contacts of the strand formed by residues 192 - 198 (chain C) in PDB entry 5FL6


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 192 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45C  LEU*     3.5    18.7    -      -       +      +
     46C  ARG      2.5    40.6    +      -       -      -
     48C  LEU*     3.8    22.9    -      -       +      +
     82C  LEU      4.5     5.5    +      -       -      -
    189C  PHE      3.6    22.9    -      -       -      -
    190C  SER      4.2     2.2    -      -       -      -
    191C  ARG*     1.3    75.5    -      -       -      +
    193C  PHE*     1.3    69.2    +      -       -      +
    194C  GLN*     3.9    18.9    +      -       +      -
    211C  THR*     3.6    23.1    -      -       +      -
    212C  VAL      3.3    15.0    -      -       -      +
    213C  PHE*     4.1     5.8    -      +       +      -
    214C  ASN      3.9     2.7    -      -       -      +
    256C  ALA*     3.5     2.8    -      -       -      -
    257C  SER*     2.9    53.3    +      -       -      -
    258C  PHE*     3.7     7.8    -      -       -      -
----------------------------------------------------------
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Residues in contact with PHE 193 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     34C  ILE*     3.9    40.8    -      -       +      -
     36C  PRO*     4.1    28.7    -      -       +      -
     39C  ALA*     4.3     3.6    -      -       +      -
    109C  VAL*     5.4     7.6    -      -       +      -
    146C  PHE*     6.1     1.1    -      +       -      -
    192C  TYR*     1.3    77.6    -      -       -      +
    194C  GLN*     1.3    61.2    +      -       -      +
    195C  TYR*     5.7     1.1    -      -       +      -
    210C  TRP      4.4     0.2    -      -       -      -
    211C  THR*     3.2     5.0    -      -       -      -
    212C  VAL*     2.7    50.3    +      -       +      +
    213C  PHE      4.7     1.6    -      -       -      -
    214C  ASN*     4.3    24.0    -      -       -      -
    254C  ILE*     4.0    14.4    -      -       +      -
    255C  GLU      3.3    10.8    -      -       -      +
    256C  ALA*     4.1    13.2    -      -       +      -
    258C  PHE*     3.7    25.6    -      +       -      -
----------------------------------------------------------
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Residues in contact with GLN 194 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45C  LEU*     3.5    29.0    -      -       +      +
     48C  LEU*     5.2     0.2    -      -       -      +
     82C  LEU*     4.1    22.1    +      -       -      +
     86C  ARG*     5.1     9.4    +      -       -      -
    192C  TYR*     3.9    21.3    +      -       +      -
    193C  PHE*     1.3    75.1    -      -       -      +
    195C  TYR*     1.3    68.0    +      -       -      +
    209C  ILE*     3.9    17.5    -      -       +      +
    210C  TRP      3.2    12.6    -      -       -      +
    211C  THR*     2.9    20.1    +      -       -      +
    253C  VAL      4.5     0.3    -      -       -      +
    254C  ILE*     3.8     1.2    -      -       -      +
    255C  GLU*     2.9    42.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with TYR 195 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     30C  SER*     2.9    32.9    +      -       -      -
     32C  VAL*     3.5    31.3    +      -       +      +
     34C  ILE*     5.8     2.0    -      -       +      -
    107C  HIS*     2.7    32.9    +      +       -      -
    193C  PHE*     5.7     0.9    -      -       +      -
    194C  GLN*     1.3    79.8    -      -       -      +
    196C  GLU*     1.3    77.5    +      -       -      +
    197C  GLY*     4.0     2.7    -      -       -      -
    209C  ILE*     3.8     4.4    -      -       -      +
    210C  TRP*     2.8    52.2    +      -       +      +
    212C  VAL*     4.8     5.4    -      -       +      -
    249C  LEU*     5.2     2.2    -      -       +      -
    252C  ARG*     3.6    25.1    -      -       +      -
    253C  VAL      4.8     5.6    -      -       -      +
    254C  ILE*     4.4    24.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 196 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     28C  PHE*     4.6     2.2    -      -       -      +
    137C  PRO*     3.9    19.1    -      -       -      +
    138C  GLY      4.8     1.6    +      -       -      -
    195C  TYR*     1.3    78.8    -      -       -      +
    197C  GLY*     1.3    60.7    +      -       -      +
    207C  GLY*     3.4    32.2    +      -       -      +
    208C  VAL      3.3    12.6    -      -       -      +
    209C  ILE*     4.5    11.8    -      -       +      +
    252C  ARG*     2.9    31.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLY 197 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     28C  PHE*     3.3    19.6    -      -       -      +
     30C  SER*     3.3    13.0    -      -       -      -
    195C  TYR*     4.0     0.7    -      -       -      -
    196C  GLU*     1.3    75.3    -      -       -      +
    198C  SER*     1.3    57.2    +      -       -      -
    206C  GLN*     3.4     1.6    -      -       -      +
    207C  GLY      3.1    12.0    +      -       -      -
    208C  VAL*     2.8    32.6    +      -       -      -
    210C  TRP*     4.0     3.4    -      -       -      -
    252C  ARG*     3.4     5.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with SER 198 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     28C  PHE      3.7     1.3    +      -       -      -
     29C  GLN*     3.3    34.3    +      -       -      -
     30C  SER*     2.9    31.8    +      -       -      -
    197C  GLY*     1.3    74.6    -      -       -      -
    199C  LEU*     1.3    83.2    +      -       -      +
    204C  CYS      3.7     2.0    -      -       -      -
    205C  ALA      3.1    15.0    -      -       -      -
    206C  GLN*     4.1     0.4    -      -       -      -
    208C  VAL*     3.7     8.1    -      -       -      -
    210C  TRP*     2.8    22.4    +      -       -      +
    244C  ARG*     3.7     0.2    +      -       -      -
----------------------------------------------------------
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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