Contacts of the strand formed by residues 69 - 76 (chain H) in PDB entry 2ZJQ


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 VAL 69 (chain H).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     22H  ILE*     4.6     2.7    -      -       +      -
     52H  VAL*     4.2    16.4    -      -       +      -
     53H  ALA      3.5    12.3    -      -       -      +
     54H  SER*     4.4     1.3    -      -       -      +
     67H  GLY      3.4     1.7    +      -       -      +
     68H  ASP*     1.3    73.9    -      -       -      +
     70H  VAL*     1.3    61.7    +      -       -      +
    106H  ARG*     4.8     3.6    +      -       -      -
   1935X    A      3.5    47.1    -      -       -      +
   2539X    C      5.1     0.4    -      -       -      +
   2540X    A      4.4    22.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 70 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     19H  ILE*     5.4     2.2    -      -       +      -
     52H  VAL*     4.4     2.9    -      -       -      -
     53H  ALA*     2.5    48.4    +      -       +      +
     55H  VAL*     3.9    18.2    -      -       +      +
     64H  VAL*     5.5     1.8    -      -       +      -
     68H  ASP*     3.8    13.5    -      -       +      +
     69H  VAL*     1.3    76.9    -      -       -      +
     71H  LYS*     1.3    83.7    +      -       -      +
     98H  ILE*     3.2    33.0    -      -       +      -
     99H  ILE      4.3     2.2    -      -       -      +
    106H  ARG*     3.3    26.7    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 71 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     25H  LEU*     4.2    17.0    -      -       +      +
     34H  LEU*     4.4    22.5    -      -       +      +
     35H  THR      6.0     0.4    +      -       -      -
     50H  ILE*     4.5    12.8    -      -       +      -
     51H  ILE      3.3    11.9    -      -       -      +
     52H  VAL*     4.2    11.0    -      -       +      -
     70H  VAL*     1.3    94.4    -      -       +      +
     72H  ALA*     1.3    60.2    +      -       -      +
     98H  ILE*     3.5     1.2    -      -       -      +
     99H  ILE*     3.0    29.9    +      -       +      +
    100H  ASN*     6.1     1.3    -      -       -      -
    101H  ASN*     3.9    21.9    +      -       -      +
    106H  ARG*     5.1     0.2    -      -       -      +
   2541X    U      4.1    20.1    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 72 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     19H  ILE*     3.9    27.8    -      -       +      -
     50H  ILE*     3.1     8.7    -      -       -      +
     51H  ILE*     2.8    37.9    +      -       +      -
     53H  ALA*     5.1     2.0    -      -       +      -
     70H  VAL*     4.0     0.4    +      -       +      -
     71H  LYS*     1.3    75.0    -      -       -      +
     73H  VAL*     1.3    62.2    +      -       -      +
     74H  VAL      4.0     0.9    -      -       -      -
     96H  ALA*     4.1     9.4    -      -       +      -
     97H  VAL      3.7     7.2    -      -       -      +
     98H  ILE*     3.9    13.9    -      -       +      +
     99H  ILE*     4.2     3.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 73 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     48H  GLY*     4.4     7.4    -      -       -      -
     49H  ASP      3.5    12.1    -      -       -      +
     50H  ILE*     4.2     3.6    -      -       +      -
     72H  ALA*     1.3    76.5    -      -       -      +
     74H  VAL*     1.3    72.7    +      -       -      +
     75H  VAL*     3.2    10.9    -      -       +      +
     96H  ALA*     4.1     2.9    -      -       -      -
     97H  VAL*     3.2    22.0    +      -       +      +
     99H  ILE*     3.5    16.4    -      -       +      -
    118H  LEU*     4.6     5.4    -      -       +      -
    123H  PHE*     2.9    41.3    -      -       +      -
    126H  ILE*     3.8    14.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 74 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      2H  ILE*     4.1    23.6    -      -       +      -
      8H  LEU*     4.2    10.1    -      -       +      -
     45H  ALA*     4.0    21.5    -      -       +      -
     46H  HIS      4.9     0.2    -      -       -      +
     47H  VAL*     4.2     2.2    -      -       -      -
     48H  GLY*     2.8    34.1    +      -       -      +
     49H  ASP*     3.0    21.7    +      -       +      +
     51H  ILE*     4.1    16.6    -      -       +      -
     72H  ALA      4.0     0.6    -      -       -      -
     73H  VAL*     1.3    75.6    -      -       -      +
     75H  VAL*     1.3    60.3    +      -       -      +
     76H  ARG      4.4     5.4    -      -       -      +
     77H  THR*     4.1    17.7    -      -       +      -
     95H  ALA      4.3     4.9    -      -       -      +
     96H  ALA*     3.7    10.8    -      -       -      +
    118H  LEU*     4.1     0.7    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 75 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     11H  ALA*     4.3     9.6    -      -       +      -
     47H  VAL*     3.2     6.5    -      -       -      -
     73H  VAL      3.2    16.8    -      -       -      +
     74H  VAL*     1.3    70.7    -      -       -      +
     76H  ARG*     1.3    87.8    +      -       +      +
     95H  ALA      3.1    19.4    +      -       -      +
     96H  ALA*     4.0     1.1    -      -       -      +
     97H  VAL*     3.7    20.4    -      -       +      +
    113H  PRO      4.8     0.4    -      -       -      +
    114H  VAL*     4.4     9.9    -      -       +      -
    115H  ALA*     2.8    32.1    +      -       -      +
    118H  LEU*     3.5    31.6    -      -       +      -
    126H  ILE*     4.5     1.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 76 (chain H). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      9H  ASP*     5.4     0.8    -      -       -      +
     10H  VAL      5.3     0.4    +      -       -      -
     11H  ALA*     3.4    22.2    -      -       -      +
     47H  VAL*     3.3     4.1    -      -       -      +
     74H  VAL*     3.8     1.8    -      -       -      +
     75H  VAL*     1.3    99.6    -      -       +      +
     77H  THR*     1.3    62.3    +      -       -      +
     91H  PHE*     3.8    32.1    -      -       +      -
     93H  ARG      3.3     8.2    -      -       -      +
     94H  ASN*     2.8    26.0    -      -       -      +
     95H  ALA*     3.0    25.1    +      -       -      +
    111H  PHE*     3.3    19.9    +      -       -      +
    112H  GLY*     3.7     3.0    +      -       -      -
    113H  PRO*     2.5    39.7    +      -       -      +
    114H  VAL*     4.5     1.6    -      -       -      +
     75M  GLU*     2.4    44.1    +      -       -      -
----------------------------------------------------------
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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