Contacts of the strand formed by residues 192 - 198 (chain B) 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 B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45B  LEU*     3.4    27.9    -      -       +      +
     46B  ARG      2.5    31.6    +      -       -      -
     48B  LEU*     3.8    23.1    -      -       +      +
     82B  LEU      4.6     5.9    +      -       -      -
    189B  PHE      3.7    22.4    -      -       -      -
    190B  SER      4.0     3.4    -      -       -      -
    191B  ARG*     1.3    76.6    -      -       -      +
    193B  PHE*     1.3    69.9    +      -       -      +
    194B  GLN*     3.9    18.6    +      -       +      -
    211B  THR*     3.5    23.8    -      -       +      -
    212B  VAL      3.4    14.6    -      -       -      +
    213B  PHE*     4.2     3.6    -      -       +      -
    214B  ASN      4.0     2.0    -      -       -      +
    256B  ALA*     3.5     2.6    -      -       -      -
    257B  SER*     2.8    52.3    +      -       -      -
    258B  PHE*     3.8     7.6    -      -       -      -
----------------------------------------------------------
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Residues in contact with PHE 193 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     34B  ILE*     3.9    41.7    -      -       +      -
     36B  PRO*     4.0    22.9    -      -       +      -
     39B  ALA*     4.2    10.8    -      -       +      -
    109B  VAL*     5.5     6.1    -      -       +      -
    146B  PHE*     6.4     0.4    -      +       -      -
    192B  TYR*     1.3    76.7    -      -       -      +
    194B  GLN*     1.3    62.0    +      -       -      +
    195B  TYR*     5.7     1.6    -      -       +      -
    211B  THR*     3.3     5.9    -      -       -      +
    212B  VAL*     2.8    48.4    +      -       +      +
    213B  PHE      4.8     2.0    -      -       -      -
    214B  ASN*     4.1    25.1    -      -       -      -
    254B  ILE*     3.8    14.4    -      -       +      -
    255B  GLU      3.1    13.9    -      -       -      +
    256B  ALA*     4.0    13.5    -      -       +      -
    258B  PHE*     3.7    24.0    -      +       -      -
----------------------------------------------------------
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Residues in contact with GLN 194 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45B  LEU*     3.5    28.2    -      -       +      +
     48B  LEU*     5.2     0.2    -      -       -      +
     82B  LEU*     4.0    21.3    +      -       -      +
     86B  ARG*     5.0     9.2    +      -       -      -
    192B  TYR*     3.9    21.9    +      -       +      -
    193B  PHE*     1.3    76.4    -      -       -      +
    195B  TYR*     1.3    68.1    +      -       -      +
    209B  ILE*     3.8    18.3    -      -       +      +
    210B  TRP      3.2    12.6    -      -       -      +
    211B  THR*     2.9    20.9    +      -       -      +
    253B  VAL      4.5     0.3    -      -       -      +
    254B  ILE*     3.7     0.8    -      -       -      +
    255B  GLU*     2.8    46.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with TYR 195 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     30B  SER*     2.9    31.8    +      -       -      -
     31B  PRO*     3.8     1.6    -      -       -      +
     32B  VAL*     3.6    27.5    -      -       +      +
     34B  ILE*     5.8     2.0    -      -       +      -
    107B  HIS*     2.7    33.9    +      +       -      -
    193B  PHE*     5.7     0.7    -      -       +      -
    194B  GLN*     1.3    81.8    -      -       -      +
    196B  GLU*     1.3    69.6    +      -       -      +
    197B  GLY      4.2     0.9    -      -       -      -
    209B  ILE*     3.7     4.6    -      -       -      +
    210B  TRP*     2.8    57.1    +      +       +      +
    212B  VAL*     4.8     6.3    -      -       +      -
    249B  LEU*     4.7     5.4    -      -       +      -
    252B  ARG*     3.8    21.1    -      -       +      -
    253B  VAL      4.8     4.7    -      -       -      +
    254B  ILE*     4.2    25.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 196 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     85A  GLY      4.4    13.1    -      -       -      +
     86A  ARG*     5.3    10.5    -      -       +      +
     28B  PHE*     4.6     1.9    -      -       -      +
    137B  PRO*     4.0    19.9    -      -       -      +
    138B  GLY      4.6     1.5    +      -       -      -
    195B  TYR*     1.3    79.8    -      -       -      +
    197B  GLY*     1.3    60.8    +      -       -      +
    207B  GLY*     3.6    31.0    +      -       -      +
    208B  VAL      3.4    12.1    -      -       -      +
    209B  ILE*     4.2    14.8    -      -       +      +
    252B  ARG*     2.8    33.4    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLY 197 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     28B  PHE*     3.3    17.5    -      -       -      +
     30B  SER*     3.4    12.6    -      -       -      -
    195B  TYR*     4.2     0.2    -      -       -      -
    196B  GLU*     1.3    74.3    -      -       -      +
    198B  SER*     1.3    61.0    +      -       -      -
    206B  GLN*     3.4     1.6    -      -       -      -
    207B  GLY      2.9    26.5    +      -       -      -
    208B  VAL      2.8    19.0    +      -       -      -
    210B  TRP*     4.1     2.6    -      -       -      -
    252B  ARG*     3.4     4.3    -      -       -      -
----------------------------------------------------------
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Residues in contact with SER 198 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     28B  PHE      3.8     1.1    +      -       -      -
     29B  GLN*     3.3    33.5    +      -       -      -
     30B  SER*     2.8    34.5    +      -       -      -
    197B  GLY*     1.3    74.0    -      -       -      -
    199B  LEU*     1.3    76.6    +      -       -      +
    204B  CYS      3.7     2.0    -      -       -      -
    205B  ALA      3.0    14.6    -      -       -      -
    206B  GLN*     4.1     0.2    -      -       -      -
    208B  VAL*     3.7     7.9    -      -       -      -
    210B  TRP*     2.8    21.6    +      -       -      +
    244B  ARG*     3.7     0.5    +      -       -      -
----------------------------------------------------------
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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