Contacts of the strand formed by residues 190 - 197 (chain C) in PDB entry 1FZB


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 190 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    153C  CYS*     3.4    23.3    -      -       -      +
    154C  GLN*     2.6    40.5    +      -       -      +
    157C  ALA*     3.8     6.1    -      -       -      -
    183C  GLU      3.6     5.2    -      -       -      -
    184C  ILE*     4.7     2.7    -      -       -      -
    188C  GLY      3.6     0.6    +      -       -      -
    189C  ASN*     1.3    70.3    -      -       -      +
    191C  TRP*     1.3    64.5    +      -       -      -
    192C  THR*     3.5     3.5    +      -       -      +
    387C  ILE*     3.8     7.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with TRP 191 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    153C  CYS*     3.4     4.3    -      -       -      +
    182C  CYS*     3.5     1.2    -      -       -      -
    183C  GLU*     2.8    68.4    +      -       +      +
    185C  ASP*     4.4     8.8    +      -       +      -
    189C  ASN*     4.3    17.6    -      -       +      +
    190C  GLY*     1.3    70.8    -      -       -      +
    192C  THR*     1.3    61.0    +      -       -      +
    193C  VAL*     3.7     1.7    +      -       +      -
    245C  ALA*     4.5     1.1    -      -       +      -
    246C  LEU      5.2     0.2    -      -       -      -
    247C  ARG*     3.5    64.3    -      -       +      +
    261C  ASP*     5.0     0.4    -      -       -      -
    385C  LYS*     3.2    48.5    -      -       +      +
    386C  ILE*     3.8     4.3    -      -       -      -
    387C  ILE*     3.8    38.1    -      -       +      -
    392C  LEU*     4.4    16.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 192 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    152C  ASP*     4.1    16.6    -      -       +      +
    153C  CYS*     3.1    43.0    -      -       +      +
    169C  ILE*     4.7     4.4    -      -       -      +
    180C  VAL*     4.9     5.8    -      -       -      +
    181C  TYR      4.0     0.2    -      -       -      -
    190C  GLY      4.0     4.0    -      -       -      +
    191C  TRP*     1.3    72.3    -      -       -      +
    193C  VAL*     1.3    62.1    +      -       -      +
    194C  PHE*     3.8     1.9    +      -       -      +
    236C  ILE*     4.2    19.4    -      -       +      +
    244C  TYR*     5.0     1.8    -      -       +      -
    385C  LYS*     3.8     0.2    -      -       -      -
    386C  ILE*     3.0    54.4    +      -       +      +
    387C  ILE*     5.1     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 193 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    180C  VAL*     5.2     1.0    -      -       -      +
    181C  TYR*     3.2    44.2    +      -       +      +
    183C  GLU*     4.3    17.7    -      -       +      +
    191C  TRP      4.3     6.1    -      -       -      +
    192C  THR*     1.3    73.6    +      -       -      +
    194C  PHE*     1.3    62.5    +      -       -      +
    195C  GLN      3.7    19.1    -      -       -      +
    196C  LYS*     4.8     8.5    -      -       +      +
    226C  PHE*     3.7    22.4    -      -       +      -
    228C  LEU*     4.3     8.5    -      -       -      +
    383C  THR*     4.4     8.7    -      -       -      +
    384C  MET      3.7    14.8    -      -       -      +
    385C  LYS*     3.9    13.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with PHE 194 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    192C  THR      4.6     2.7    -      -       -      +
    193C  VAL*     1.3    73.9    -      -       -      +
    195C  GLN*     1.3    64.6    +      -       +      +
    226C  PHE*     3.9     6.3    -      -       -      -
    227C  TRP*     3.9    16.7    -      +       -      -
    228C  LEU*     3.1    43.4    +      -       +      -
    233C  ILE*     3.5    31.6    -      -       +      -
    246C  LEU*     3.6    17.0    -      -       +      -
    265C  PHE*     4.1    17.5    -      +       -      -
    335C  TRP*     5.5     5.2    -      +       -      -
    384C  MET*     3.0    55.1    +      -       +      -
    385C  LYS*     4.5     1.1    -      -       -      -
    386C  ILE*     3.5    36.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLN 195 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    193C  VAL*     3.7     8.0    -      -       -      +
    194C  PHE*     1.3    82.3    -      -       +      +
    196C  LYS*     1.3    65.9    +      -       -      +
    197C  ARG*     3.2     6.2    -      -       -      +
    204C  PHE*     3.6    14.5    -      -       -      -
    226C  PHE*     3.6     9.8    -      -       -      -
    227C  TRP*     3.2    22.6    -      -       +      -
    344C  LEU      3.1     9.5    +      -       -      +
    345C  ASN*     2.8    25.4    +      -       -      -
    382C  THR*     2.7    30.1    -      -       +      +
    383C  THR*     3.3     1.9    -      -       -      -
    384C  MET*     3.0    52.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with LYS 196 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    181C  TYR*     5.4     6.9    -      -       -      -
    183C  GLU*     5.8     2.0    +      -       -      -
    193C  VAL*     4.8     7.6    -      -       +      +
    195C  GLN*     1.3    77.2    -      -       -      +
    197C  ARG*     1.3    84.7    +      -       -      +
    198C  LEU*     3.9    21.7    -      -       +      +
    222C  GLY*     3.5    23.5    +      -       -      +
    224C  THR      4.0    10.1    -      -       -      +
    225C  GLU*     2.9    19.2    -      -       -      +
    226C  PHE*     3.2    30.9    +      -       +      +
    381C  LYS*     5.6     2.5    -      -       +      -
    382C  THR      3.1    11.2    -      -       -      +
    383C  THR*     3.3    30.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 197 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    195C  GLN*     3.2    21.1    -      -       -      +
    196C  LYS*     1.3    82.1    -      -       -      +
    198C  LEU*     1.3    68.3    +      -       -      +
    202C  VAL      4.5     4.2    +      -       -      -
    204C  PHE*     3.5    46.1    -      -       -      +
    225C  GLU*     3.7    15.9    +      -       -      +
    344C  LEU      2.9    20.9    +      -       -      +
    345C  ASN*     3.2    10.9    -      -       -      +
    346C  GLY      3.0    29.9    +      -       -      +
    347C  VAL*     4.9     0.2    -      -       -      +
    348C  TYR*     3.9    26.2    -      -       +      +
    367C  ILE*     3.6    19.2    -      -       +      +
    381C  LYS*     3.6     2.4    -      -       -      +
    382C  THR*     2.7    42.0    +      -       -      +
----------------------------------------------------------
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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