Contacts of the strand formed by residues 142 - 147 (chain N) in PDB entry 2FBW


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 GLN 142 (chain N).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    129N  ALA*     3.6    17.7    -      -       +      -
    130N  PHE      3.0    31.6    +      -       -      +
    132N  GLY      5.3     1.9    +      -       -      -
    133N  GLN*     3.0    23.4    +      -       -      +
    135N  LEU*     3.8    10.6    -      -       -      +
    141N  GLY*     1.3    70.8    -      -       -      -
    143N  ALA*     1.3    81.5    +      -       -      +
    144N  HIS*     3.4    23.6    +      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 143 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     72N  GLU*     4.7     0.4    -      -       -      +
     74N  ASP*     5.0     0.7    -      -       -      +
    129N  ALA*     3.6     5.9    -      -       -      -
    130N  PHE      4.5     0.3    +      -       -      -
    133N  GLN*     3.1    17.2    +      -       +      +
    134N  SER      3.7     7.9    -      -       -      +
    135N  LEU*     3.6    18.8    -      -       +      -
    141N  GLY      3.4     2.6    +      -       -      -
    142N  GLN*     1.3    98.8    +      -       -      +
    144N  HIS*     1.3    59.8    +      -       -      +
    145N  ARG*     3.5    41.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with HIS 144 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     71N  MET*     3.7    20.5    -      -       +      +
     72N  GLU*     2.7    37.6    +      -       -      +
     74N  ASP*     5.2     0.2    -      -       -      +
    127N  GLN*     3.1    26.3    -      -       -      +
    128N  ARG*     3.6    10.3    -      -       -      -
    129N  ALA*     3.7    30.0    -      -       +      +
    142N  GLN*     3.4    26.5    +      -       +      +
    143N  ALA*     1.3    70.6    -      -       -      +
    145N  ARG*     1.3    58.8    +      -       -      +
    146N  CYS      3.7     0.4    -      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 145 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     65N  ASN*     3.5     3.0    -      -       -      +
     66N  ALA      3.1    43.6    +      -       -      +
     67N  ALA*     4.5     0.4    -      -       -      +
     74N  ASP*     2.9    43.5    +      -       -      +
     78N  TRP*     3.7    12.9    -      -       -      +
     79N  HIS*     3.7    35.7    -      -       -      +
     82N  ASP*     2.8    22.0    +      -       -      -
    127N  GLN*     3.3    12.4    +      -       -      +
    128N  ARG      3.4     1.4    +      -       -      -
    133N  GLN*     3.0    45.7    +      -       -      +
    134N  SER      2.9    22.6    +      -       -      -
    135N  LEU*     4.4     0.8    -      -       -      +
    143N  ALA*     3.5    13.7    +      -       +      +
    144N  HIS*     1.3    74.9    -      -       -      +
    146N  CYS*     1.3    59.6    +      -       -      +
    147N  CYS*     3.3     5.1    +      -       -      -
----------------------------------------------------------
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Residues in contact with CYS 146 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     62N  GLY      3.4    25.6    -      -       -      -
     63N  GLY*     3.6    17.7    -      -       -      -
     64N  ILE      3.7     1.8    -      -       -      -
     65N  ASN*     3.6    16.6    -      -       -      +
    126N  TYR      3.9     0.2    -      -       -      +
    127N  GLN*     3.3     2.2    -      -       -      -
    128N  ARG*     2.8    48.2    +      -       +      +
    130N  PHE*     3.5    34.3    -      -       +      -
    133N  GLN*     4.7     0.6    -      -       -      +
    144N  HIS      3.7     0.6    -      -       -      -
    145N  ARG*     1.3    73.0    -      -       -      +
    147N  CYS*     1.3    64.1    +      -       -      +
    148N  CYS*     3.7     1.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with CYS 147 (chain N). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     63N  GLY*     3.1     3.3    -      -       -      -
     64N  ILE*     2.8    52.7    +      -       +      +
     66N  ALA*     4.4     6.5    -      -       -      -
     68N  LEU*     3.6    31.0    -      -       -      -
    107N  VAL*     4.0    10.1    -      -       +      -
    117N  PHE*     3.8    13.0    -      -       +      -
    125N  ILE*     3.6    15.0    -      -       +      -
    126N  TYR      3.6     7.2    -      -       -      -
    127N  GLN*     3.7    18.6    -      -       -      +
    145N  ARG      3.9     2.5    -      -       -      -
    146N  CYS*     1.3    70.4    -      -       -      +
    148N  CYS*     1.3    58.9    +      -       -      +
    153N  THR*     4.0     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