Contacts of the strand formed by residues 148 - 154 (chain B) in PDB entry 2FQ6


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 148 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    103B  HIS*     2.7    32.9    +      -       -      +
    105B  LEU*     4.3     4.3    -      -       +      -
    144B  LEU*     3.8    23.9    -      -       +      -
    145B  GLN      2.8    32.4    +      -       -      -
    146B  PRO      3.4     0.9    -      -       -      +
    147B  ASN*     1.3    75.2    +      -       -      +
    149B  LYS*     1.3    61.1    +      -       -      +
    150B  ILE      3.7    20.2    -      -       -      +
    151B  VAL*     4.0     8.7    -      -       +      -
    177B  VAL*     3.4    24.3    -      -       -      +
    179B  ASP*     5.4     0.2    -      -       -      +
    180B  ALA*     4.4     4.0    -      -       +      +
----------------------------------------------------------
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Residues in contact with LYS 149 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     97B  PHE*     3.1    31.3    +      -       +      +
     98B  ILE*     4.5     2.2    -      -       +      -
     99B  GLU*     4.1    19.8    +      -       -      +
    102B  ASP*     2.6    52.9    +      -       +      +
    103B  HIS      2.8    12.7    +      -       -      +
    147B  ASN      3.0     1.9    +      -       -      +
    148B  THR*     1.3    73.0    -      -       -      +
    150B  ILE*     1.3    67.7    +      -       +      +
    179B  ASP*     5.5     4.7    -      -       -      +
    180B  ALA*     3.6     5.2    -      -       -      +
    181B  ILE*     2.8    33.5    +      -       +      +
    232B  GLN*     5.8     2.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 150 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     94B  ILE*     3.5    49.8    -      -       +      +
     97B  PHE*     4.3     4.5    -      -       +      -
     98B  ILE*     3.6    16.8    -      -       +      -
    103B  HIS      3.5     2.8    +      -       -      -
    104B  VAL*     3.6    14.4    -      -       +      -
    105B  LEU      2.9    26.0    +      -       -      -
    148B  THR*     3.7     6.1    -      -       -      +
    149B  LYS*     1.3    87.5    -      -       +      +
    151B  VAL*     1.3    76.9    -      -       -      +
    152B  PHE*     4.1    11.0    -      -       +      +
    181B  ILE*     3.3    14.8    -      -       +      +
    183B  MET*     4.0    27.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 151 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    105B  LEU*     3.3    12.1    -      -       +      +
    132B  PHE*     4.4     2.0    -      -       +      -
    140B  ILE*     4.0    20.0    -      -       +      -
    144B  LEU*     4.0     9.2    -      -       +      -
    148B  THR*     4.0    17.7    -      -       +      -
    150B  ILE*     1.3    79.9    -      -       -      +
    152B  PHE*     1.3    60.6    +      -       -      +
    153B  LEU*     4.0    20.6    -      -       +      -
    169B  ILE*     4.8     0.7    -      -       +      -
    173B  VAL*     3.9    31.0    -      -       +      -
    180B  ALA*     4.7     3.4    -      -       +      -
    181B  ILE      3.0     7.5    +      -       -      +
    182B  ILE*     3.4    15.5    -      -       +      +
    183B  MET      3.0    26.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 152 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     90B  VAL*     3.8    22.4    -      -       +      -
     94B  ILE*     3.8    31.9    -      -       +      -
    104B  VAL*     5.1     1.3    -      -       +      -
    105B  LEU      2.7    15.5    +      -       -      +
    106B  MET*     3.4    33.8    -      -       +      -
    107B  THR      3.0    27.9    +      -       -      -
    110B  ALA*     4.7     6.3    -      -       +      -
    114B  SER*     4.7     3.6    -      -       -      -
    132B  PHE*     3.9     3.5    -      -       -      -
    150B  ILE*     4.1     7.4    -      -       +      -
    151B  VAL*     1.3    71.7    -      -       -      +
    153B  LEU*     1.3    76.1    +      -       -      +
    154B  GLU*     4.6     8.3    -      -       -      -
    183B  MET*     3.7    15.5    -      -       +      -
    185B  ASP*     4.1    25.6    -      -       +      -
    205B  ILE*     3.9    22.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 153 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    107B  THR*     4.2     0.2    -      -       -      -
    132B  PHE*     3.7    26.0    -      -       +      -
    151B  VAL*     4.0    13.2    -      -       +      -
    152B  PHE*     1.3    81.9    -      -       -      +
    154B  GLU*     1.3    61.4    +      -       -      +
    164B  HIS*     3.6    16.2    -      -       +      +
    166B  VAL*     4.0    29.8    -      -       +      -
    169B  ILE*     4.0    21.3    -      -       +      -
    170B  VAL*     5.0     0.9    -      -       +      -
    182B  ILE*     4.1    19.7    -      -       +      -
    183B  MET      2.8    16.2    +      -       -      +
    184B  ILE*     3.2    10.6    -      -       +      -
    185B  ASP      2.9    22.9    +      -       -      -
    201B  ILE*     4.3    12.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 154 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    107B  THR*     3.6    13.6    -      -       +      +
    109B  THR*     4.2     2.9    +      -       -      +
    110B  ALA*     3.3     6.9    -      -       -      +
    111B  TYR*     2.9    25.5    +      -       -      +
    114B  SER*     5.0     0.5    +      -       -      -
    152B  PHE*     4.6     3.4    -      -       +      -
    153B  LEU*     1.3    74.5    -      -       -      +
    155B  SER*     1.3    61.7    +      -       -      +
    156B  PRO      3.6    17.7    -      -       -      +
    157B  GLY*     3.6     8.4    +      -       -      -
    158B  SER*     2.5    37.9    +      -       -      -
    162B  GLU      4.4     0.5    -      -       -      +
    164B  HIS*     3.2    20.0    +      -       -      -
    184B  ILE*     4.3     0.4    -      -       -      -
    185B  ASP*     3.7    27.7    -      -       +      +
    700B  P3F      3.3    19.9    -      -       +      +
----------------------------------------------------------
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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