Contacts of the strand formed by residues 151 - 157 (chain C) in PDB entry 3ELP


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 151 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106C  GLN*     2.6    37.8    +      -       -      +
    108C  ILE*     4.0    15.7    -      -       +      -
    147C  ILE*     4.6     8.5    -      -       +      -
    148C  THR*     2.7    36.7    +      -       -      +
    149C  PRO      4.1     3.3    -      -       -      +
    150C  GLU*     1.3    76.5    -      -       -      +
    152C  LYS*     1.3    65.4    +      -       -      +
    153C  LEU      4.3     5.8    -      -       -      +
    154C  VAL*     4.6     0.4    -      -       +      -
    181C  ASP      4.1     2.3    -      -       -      +
    182C  ILE*     3.3    34.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with LYS 152 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    101C  LEU*     4.2    21.6    -      -       +      +
    102C  LYS*     4.0    14.6    -      -       -      +
    105C  ASP*     2.9    32.3    -      -       -      +
    106C  GLN      3.0     5.9    +      -       -      -
    149C  PRO      5.0     9.8    +      -       -      +
    150C  GLU*     3.8     9.4    -      -       -      +
    151C  THR*     1.3    77.9    -      -       -      +
    153C  LEU*     1.3    63.9    +      -       -      +
    181C  ASP*     3.7    30.9    +      -       -      +
    182C  ILE*     3.4    14.1    -      -       -      -
    183C  ILE*     3.0    28.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 153 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     97C  ILE*     4.2    25.6    -      -       +      +
     98C  THR*     4.5     9.0    -      -       +      -
    101C  LEU*     3.6    25.6    -      -       +      -
    106C  GLN      3.5     1.8    +      -       -      +
    107C  ILE*     3.1    32.2    -      -       +      +
    108C  ILE      2.8    31.0    +      -       -      -
    151C  THR*     3.8     1.8    -      -       -      +
    152C  LYS*     1.3    81.3    -      -       -      +
    154C  VAL*     1.3    63.9    +      -       -      +
    155C  TRP*     4.2     4.5    -      -       +      +
    182C  ILE*     3.6     1.6    -      -       -      +
    183C  ILE*     3.4    28.3    -      -       +      +
    185C  VAL*     3.3    32.3    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 154 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    108C  ILE*     3.3    26.0    -      -       +      +
    143C  LEU*     4.5    15.0    -      -       +      -
    147C  ILE*     4.8     1.6    -      -       +      -
    151C  THR*     4.6     0.4    -      -       +      -
    153C  LEU*     1.3    77.9    -      -       -      +
    155C  TRP*     1.3    57.4    +      -       -      +
    156C  ILE*     3.8    19.3    -      -       +      -
    176C  VAL*     3.8    18.4    -      -       +      -
    182C  ILE*     3.6    22.9    -      -       +      -
    183C  ILE      2.8    12.6    +      -       -      +
    184C  LEU*     3.4    20.7    -      -       +      +
    185C  VAL      2.8    32.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with TRP 155 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     94C  THR*     3.3    40.8    -      -       +      -
     97C  ILE*     3.8    26.0    -      -       +      -
     98C  THR*     5.6     1.1    -      -       +      -
    107C  ILE*     4.5     5.8    -      -       +      -
    108C  ILE      2.7     9.1    +      -       -      +
    109C  CYS*     3.4    19.7    -      -       -      -
    110C  MET      3.0    26.3    +      -       -      -
    121C  PHE*     3.3    28.4    -      +       +      -
    153C  LEU*     4.2     8.4    -      -       +      -
    154C  VAL*     1.3    70.8    -      -       -      +
    156C  ILE*     1.3    66.0    +      -       -      +
    157C  GLU*     3.1    37.2    +      -       +      +
    185C  VAL*     3.5    39.3    -      -       +      -
    187C  ASP*     4.0    15.4    +      -       +      +
    207C  MET*     3.5    22.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 156 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    110C  MET*     3.9     6.7    -      -       +      -
    137C  CYS*     3.4    43.5    -      -       +      -
    154C  VAL*     3.8    18.2    -      -       +      -
    155C  TRP*     1.3    83.0    -      -       -      +
    157C  GLU*     1.3    69.8    +      -       -      +
    158C  THR*     4.3     7.2    -      -       +      -
    167C  ILE*     3.7    31.9    -      -       +      -
    169C  ILE*     4.5     7.6    -      -       +      -
    172C  CYS*     4.5     5.2    -      -       +      -
    184C  LEU*     4.0    10.1    -      -       +      -
    185C  VAL      2.9    12.9    +      -       -      +
    186C  VAL*     3.3    11.9    -      -       +      +
    187C  ASP      2.9    23.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with GLU 157 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    109C  CYS*     5.0     1.6    -      -       -      +
    110C  MET*     3.4    34.1    +      -       -      +
    112C  ASP*     4.6     8.1    -      -       -      +
    117C  THR*     4.9    11.8    +      -       +      -
    118C  ASN*     5.7     1.2    +      -       -      -
    121C  PHE*     4.3     9.7    -      -       -      -
    155C  TRP*     3.1    32.7    +      -       -      +
    156C  ILE*     1.3    75.4    -      -       -      +
    158C  THR*     1.3    64.3    +      -       -      +
    159C  PRO      4.3     2.0    -      -       -      +
    160C  THR*     4.3    12.7    -      -       -      +
    167C  ILE*     3.9    14.6    -      -       -      +
    187C  ASP*     3.9    20.4    -      -       +      +
    190C  PHE*     4.7    19.1    -      -       +      -
----------------------------------------------------------
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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