Contacts of the strand formed by residues 144 - 152 (chain G) in PDB entry 2KVQ


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 PHE 144 (chain G).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     67E  MET*     3.5    30.5    -      -       +      -
    135G  ARG*     3.7     3.0    -      -       -      +
    136G  VAL*     2.8    29.9    +      -       -      +
    140G  PRO      3.6     2.7    -      -       -      -
    141G  PHE*     3.2    21.7    +      -       -      +
    142G  ALA      2.8    29.1    -      -       -      -
    143G  ASP*     1.3    86.6    -      -       +      +
    145G  ASN*     1.3    61.0    +      -       -      +
    162G  VAL*     3.6    32.3    -      -       +      -
    163G  SER      5.2     7.0    -      -       -      -
    164G  ILE*     5.7     6.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 145 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    133G  MET*     4.3    21.9    -      -       +      +
    134G  VAL      3.4    14.6    -      -       -      +
    135G  ARG*     4.4    16.2    -      -       +      +
    136G  VAL*     5.5     0.4    -      -       -      -
    144G  PHE*     1.3    77.4    -      -       -      +
    146G  GLY*     1.3    59.5    +      -       -      +
    162G  VAL*     4.0    19.3    -      -       -      +
    163G  SER*     4.2     9.5    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLY 146 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    133G  MET*     3.0     8.7    -      -       -      +
    134G  VAL*     2.6    39.4    +      -       -      +
    145G  ASN*     1.3    78.8    -      -       -      +
    147G  VAL*     1.3    62.3    +      -       -      -
    160G  VAL*     3.5     9.4    -      -       -      -
    161G  SER      3.3    16.6    -      -       -      -
    163G  SER      5.5     0.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 147 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    131G  GLY*     3.0    47.3    -      -       -      +
    132G  GLU      3.1     9.2    -      -       -      +
    133G  MET*     3.7    17.9    -      -       +      +
    146G  GLY*     1.3    79.9    -      -       -      +
    148G  VAL*     1.3    60.1    +      -       -      +
    149G  GLU*     3.0    27.1    +      -       +      +
    160G  VAL*     3.0    17.9    -      -       -      +
    161G  SER      3.4     4.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 148 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    128G  PHE*     4.7     3.4    -      -       +      -
    129G  GLU      2.8    33.4    -      -       -      +
    130G  PRO*     3.1     2.8    -      -       -      +
    131G  GLY      3.0    14.3    +      -       -      -
    132G  GLU*     2.9    22.3    +      -       +      +
    134G  VAL*     4.4     7.0    -      -       +      -
    147G  VAL*     1.3    71.7    -      -       -      +
    149G  GLU*     1.3    61.6    +      -       -      +
    150G  GLU      2.9    29.4    -      -       -      +
    151G  VAL*     3.4    13.5    -      -       +      -
    158G  LEU*     4.1    10.3    -      -       +      -
    159G  LYS      3.1     9.0    -      -       -      +
    160G  VAL*     2.9    20.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 149 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    130G  PRO*     3.8    15.8    -      -       -      +
    131G  GLY      4.6     3.6    -      -       -      +
    147G  VAL*     3.0    24.7    +      -       +      +
    148G  VAL*     1.3    74.8    -      -       -      +
    150G  GLU*     1.3    61.0    +      -       +      +
    159G  LYS*     2.8    28.2    +      -       -      +
    161G  SER*     3.2    28.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLU 150 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    130G  PRO*     5.5     0.4    -      -       -      -
    148G  VAL*     2.9     5.4    -      -       -      +
    149G  GLU*     1.3    80.4    -      -       +      +
    151G  VAL*     1.3    75.2    +      -       -      +
    152G  ASP*     3.9    16.7    -      -       -      +
    159G  LYS*     2.7    61.1    +      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 151 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    128G  PHE      4.3    10.1    -      -       -      +
    129G  GLU*     4.4     0.2    -      -       -      -
    130G  PRO*     4.2    23.3    -      -       +      -
    148G  VAL*     3.4    19.1    -      -       +      -
    150G  GLU*     1.3    83.6    -      -       -      +
    152G  ASP*     1.3    76.4    +      -       -      +
    153G  TYR*     3.8    36.5    -      -       +      +
    157G  ARG      4.1     2.2    -      -       -      -
    158G  LEU*     2.9    30.7    -      -       +      -
    175G  PHE*     4.6     0.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASP 152 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    150G  GLU*     3.9    20.6    -      -       -      +
    151G  VAL*     1.3    95.1    -      -       -      +
    153G  TYR*     1.3    60.4    +      -       -      +
    154G  GLU*     3.2     2.0    -      -       +      +
    155G  LYS*     3.9    26.5    -      -       +      +
    156G  SER      2.7    23.7    +      -       -      -
    157G  ARG*     2.9    29.7    +      -       +      +
    159G  LYS*     6.0     2.7    -      -       -      +
    172G  GLU*     5.3     5.2    -      -       -      +
    175G  PHE*     4.9     0.8    -      -       -      -
----------------------------------------------------------
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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