Contacts of the strand formed by residues 150 - 155 (chain A) in PDB entry 1HRN


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 150 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    137A  PHE*     3.6     8.6    -      -       -      -
    148A  GLU*     3.2    22.6    +      -       +      +
    149A  ASP*     1.3    87.2    -      -       +      +
    151A  PHE*     1.3    54.2    +      -       -      +
    168A  GLY*     2.6    36.6    +      -       -      -
    169A  GLY*     3.4    27.1    -      -       -      +
    312A  GLU*     3.6    26.2    -      -       +      +
    313A  PHE      3.3    12.6    -      -       -      +
    314A  ASP*     3.5    28.0    -      -       -      +
    316A  ARG*     5.5     0.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with PHE 151 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     33A  THR*     3.6    12.1    -      -       +      -
    123A  MET*     3.5    50.7    -      -       +      -
    137A  PHE*     3.7    33.0    -      +       +      -
    150A  VAL*     1.3    73.7    -      -       -      +
    152A  SER*     1.3    58.3    +      -       -      +
    153A  PHE*     3.7    12.6    -      +       -      -
    165A  ILE*     4.7     2.0    -      -       +      -
    166A  VAL      3.2    13.2    -      -       -      +
    167A  LEU*     4.2    17.0    -      -       +      -
    169A  GLY      4.3     0.4    -      -       -      -
    190A  TRP*     3.7    20.2    -      +       -      -
    312A  GLU*     3.7     0.2    -      -       -      -
    313A  PHE*     2.7    70.4    +      +       +      -
    315A  ARG*     4.7     1.8    -      -       -      -
----------------------------------------------------------
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Residues in contact with SER 152 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    151A  PHE*     1.3    73.8    +      -       -      +
    153A  PHE*     1.3    64.6    +      -       -      +
    164A  GLN      3.6     1.0    -      -       -      +
    165A  ILE*     3.2     7.3    -      -       -      +
    166A  VAL*     2.9    31.2    +      -       -      -
    169A  GLY      2.4    25.1    +      -       -      -
    170A  SER*     2.9    13.2    +      -       -      -
    310A  TYR*     3.2    28.6    +      -       -      -
    311A  THR      3.0    11.0    -      -       -      -
    312A  GLU*     3.8     8.0    -      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 153 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      6A  LEU*     5.0     0.7    -      -       +      -
     31A  PHE*     3.7    18.2    -      -       +      -
     33A  THR*     4.6     0.2    -      -       +      -
    123A  MET*     4.5     5.2    -      -       +      -
    151A  PHE*     3.7    27.1    -      +       -      -
    152A  SER*     1.3    79.7    -      -       -      +
    154A  TYR*     1.4    59.2    +      -       -      +
    155A  TYR*     3.6    27.4    -      +       +      -
    164A  GLN      3.5     2.2    -      -       -      -
    165A  ILE*     3.6    38.1    -      -       +      -
    216A  THR*     3.4    42.8    -      -       +      -
    306A  ILE*     4.3    13.8    -      -       +      +
    310A  TYR*     3.7    11.1    -      -       -      -
    311A  THR*     2.7    34.5    +      -       -      +
    313A  PHE*     3.9    15.3    -      +       +      -
----------------------------------------------------------
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Residues in contact with TYR 154 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    153A  PHE*     1.4    72.7    -      -       -      +
    155A  TYR*     1.3    75.9    +      -       -      +
    156A  ASN*     3.1    46.3    +      -       +      -
    161A  LEU*     3.8    32.3    -      -       +      -
    163A  GLY*     3.1     8.3    -      -       -      -
    164A  GLN*     2.8    38.2    +      -       +      +
    174A  HIS*     3.7    35.8    +      +       +      -
    306A  ILE*     5.1     0.9    -      -       -      -
    307A  ARG      5.6     0.2    -      -       -      -
    310A  TYR*     3.8    18.2    -      +       +      +
    325A  ALA*     4.6    11.7    -      -       +      -
    326A  ARG*     3.3    24.5    +      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 155 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      6A  LEU*     3.7    11.6    -      -       +      +
     14A  TYR*     3.6    51.7    +      +       +      +
     30A  VAL*     5.7     0.2    -      -       -      +
     31A  PHE      4.4     1.9    +      -       -      -
    153A  PHE*     3.6    27.6    -      +       -      -
    154A  TYR*     1.3    92.5    -      -       -      +
    156A  ASN*     1.3    63.1    +      -       -      +
    162A  GLY      4.1     0.7    -      -       -      -
    216A  THR*     2.6    37.0    +      -       -      -
    303A  ALA*     3.6    32.5    -      -       +      -
    306A  ILE*     3.6    37.6    +      -       +      +
    307A  ARG*     3.5    27.3    -      -       +      +
----------------------------------------------------------
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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