Contacts of the strand formed by residues 160 - 166 (chain G) in PDB entry 3LUE


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 160 (chain G).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    109G  PRO*     3.2     7.3    -      -       -      +
    110G  LEU*     3.4     0.3    -      -       -      +
    153G  MET*     3.5    19.1    -      -       -      -
    154G  ASP      3.1    12.3    -      -       -      +
    155G  SER*     2.9    19.7    +      -       -      +
    159G  VAL*     1.3    74.3    -      -       -      +
    161G  HIS*     1.3    62.9    +      -       -      +
    162G  THR*     5.3     0.9    -      -       +      -
    177G  ARG*     3.3     4.0    -      -       -      -
    178G  LEU*     2.7    43.3    +      -       +      +
    180G  LEU      2.8    22.5    +      -       -      -
    261G  LEU*     5.0     0.3    -      -       -      +
    274G  ILE*     3.4    28.7    -      -       +      +
    277G  THR*     6.2     0.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with HIS 161 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    109G  PRO*     1.6    39.4    -      -       +      +
    110G  LEU*     2.1    39.2    +      -       -      -
    136G  ILE*     4.2    20.7    -      -       +      +
    138G  ALA*     4.7     0.7    -      -       -      +
    152G  VAL      3.7     1.2    -      -       -      +
    153G  MET*     3.5     2.9    -      -       -      -
    154G  ASP*     2.9    34.0    +      -       +      +
    160G  THR*     1.3    75.4    -      -       -      +
    162G  THR*     1.3    65.3    +      -       -      +
    163G  VAL*     3.9    14.8    -      -       +      +
    175G  ILE*     3.3    23.4    -      -       +      +
    176G  LEU      3.0    18.2    -      -       -      +
    177G  ARG*     3.3    13.5    -      -       +      +
    277G  THR*     6.0     0.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with THR 162 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    151G  ILE*     4.3     4.9    -      -       +      -
    152G  VAL      3.4     5.2    -      -       -      +
    153G  MET*     3.6    19.5    -      -       +      -
    160G  THR*     5.3     1.6    -      -       +      -
    161G  HIS*     1.3    77.5    -      -       -      +
    163G  VAL*     1.3    60.1    +      -       -      +
    164G  PRO*     4.3     0.2    -      -       -      -
    175G  ILE*     3.3     6.2    -      -       -      +
    176G  LEU*     3.0    28.9    +      -       -      +
    274G  ILE*     4.9     0.9    -      -       +      +
    277G  THR*     3.4    25.6    +      -       +      +
    278G  THR*     3.4    38.4    -      -       +      +
    281G  SER*     3.0    24.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 163 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    136G  ILE*     5.4     2.2    -      -       +      -
    138G  ALA*     5.0     6.5    -      -       +      -
    139G  VAL*     3.6    34.3    -      -       +      -
    151G  ILE*     3.2    23.3    -      -       -      +
    152G  VAL*     3.2    17.0    +      -       +      +
    161G  HIS*     3.9    20.6    -      -       +      +
    162G  THR*     1.3    77.7    -      -       -      +
    164G  PRO*     1.3    61.5    -      -       -      +
    165G  ILE*     3.8    16.3    +      -       +      +
    170G  ALA*     3.8    23.3    -      -       +      -
    175G  ILE*     4.0    18.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with PRO 164 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    150G  GLY      3.8     5.2    -      -       -      +
    151G  ILE*     4.0     6.7    -      -       +      -
    162G  THR      4.1     0.2    -      -       -      +
    163G  VAL*     1.3    83.4    -      -       -      +
    165G  ILE*     1.3    55.2    +      -       -      +
    170G  ALA*     3.5     2.1    -      -       -      -
    171G  LEU*     2.7    42.8    +      -       +      +
    174G  ALA*     3.5    31.6    -      -       +      +
    175G  ILE*     4.1     2.7    -      -       +      +
    281G  SER*     3.8    13.7    -      -       -      -
    285G  CYS*     3.2    37.5    -      -       -      -
    293G  LEU*     3.8    12.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 165 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     43E  VAL*     2.1    19.7    -      -       -      +
     44E  MET*     1.3   111.7    -      -       +      +
     61E  LYS*     3.1     5.5    -      -       -      -
    139G  VAL*     5.3     4.0    -      -       +      -
    142G  LEU*     1.5    58.1    -      -       +      -
    148G  THR      3.4     0.9    -      -       -      +
    149G  THR*     3.2     0.3    -      -       -      +
    150G  GLY      2.9    16.4    +      -       -      +
    152G  VAL*     4.1     5.4    -      -       +      -
    163G  VAL*     3.9    20.9    -      -       +      +
    164G  PRO*     1.3    74.9    -      -       -      +
    166G  TYR*     1.3    56.0    +      -       -      +
    169G  TYR      3.2     6.3    -      -       -      +
    170G  ALA*     3.8    13.9    -      -       +      -
    171G  LEU*     4.7     0.7    -      -       -      -
    293G  LEU*     4.1     3.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with TYR 166 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     53E  TYR*     3.0     2.8    -      -       -      -
     57E  GLU      2.1    27.4    -      -       -      -
     58E  ALA*     1.5    49.8    -      -       -      +
     61E  LYS*     0.8   351.3    -      -       +      +
     64E  ILE*     3.0    19.3    -      -       +      +
     65E  LEU*     2.3    43.1    -      -       +      +
    165G  ILE*     1.3    61.6    -      -       -      +
    167G  GLU*     1.3    71.6    +      -       +      +
    168G  GLY      3.4     0.4    -      -       -      -
    169G  TYR*     2.9    27.0    +      -       -      +
    171G  LEU*     4.2     0.2    -      -       -      +
    289G  ILE*     3.8     2.0    -      -       +      -
----------------------------------------------------------
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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