Contacts of the strand formed by residues 166 - 175 (chain C) in PDB entry 3T0E


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 166 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    111C  ILE*     5.1     1.1    -      -       +      -
    112C  GLN*     4.1    14.1    -      -       +      -
    113C  ASN*     3.1    41.3    -      -       +      -
    136C  ASP*     3.5    27.8    -      -       -      -
    159C  LEU*     3.9     0.9    -      -       -      +
    160C  ASP*     3.4     4.9    +      -       -      +
    161C  MET*     2.9    50.2    +      -       +      +
    164C  MET*     4.2    17.3    -      -       +      +
    165C  ASP*     1.3    77.2    -      -       -      +
    167C  LYS*     1.3    72.0    +      -       -      +
    168C  SER*     4.2    12.1    -      -       -      -
    140D  LYS*     3.3    42.6    -      -       +      -
    195D  ARG*     4.3     3.6    -      -       -      -
----------------------------------------------------------
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Residues in contact with LYS 167 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     13C  GLU*     2.9    38.6    -      -       -      +
     79C  LEU*     3.7    26.2    -      -       -      +
    109C  PRO*     4.9     4.9    -      -       +      -
    110C  ASN      4.3    11.0    -      -       -      +
    111C  ILE*     3.4    22.7    -      -       -      +
    112C  GLN*     4.2     5.0    +      -       +      +
    158C  VAL*     4.4    11.7    -      -       +      -
    159C  LEU      3.4     5.8    -      -       -      +
    160C  ASP*     2.9    41.7    +      -       +      +
    162C  ARG*     4.0    13.7    -      -       -      +
    165C  ASP*     5.9     3.8    +      -       -      +
    166C  PHE*     1.3    81.2    -      -       -      +
    168C  SER*     1.3    62.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 168 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    111C  ILE*     3.7     7.0    -      -       -      -
    135C  THR*     3.9     4.3    +      -       -      -
    136C  ASP*     2.9    36.4    +      -       -      -
    158C  VAL*     4.5     2.2    -      -       -      +
    159C  LEU*     2.8    60.7    +      -       -      +
    166C  PHE*     4.2     9.3    -      -       -      -
    167C  LYS*     1.3    75.6    -      -       -      +
    169C  ASN*     1.3    61.5    +      -       -      +
    195D  ARG*     4.2     7.4    +      -       -      -
----------------------------------------------------------
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Residues in contact with ASN 169 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    109C  PRO*     3.5     6.9    -      -       -      +
    111C  ILE*     3.0    33.1    -      -       +      +
    136C  ASP      3.2    20.0    +      -       -      -
    137C  PHE*     3.3    37.2    +      -       +      +
    138C  ASP      4.1     1.0    +      -       -      -
    139C  SER*     3.6    17.2    +      -       -      +
    156C  LYS*     3.3    31.1    +      -       +      +
    157C  THR      4.0     3.6    -      -       -      -
    158C  VAL*     3.2    27.7    +      -       -      +
    168C  SER*     1.3    70.0    -      -       -      +
    170C  SER*     1.3    59.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with SER 170 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    133C  LEU*     4.6     0.9    -      -       -      -
    134C  PHE      3.4     4.7    -      -       -      -
    135C  THR*     3.6    22.9    -      -       -      -
    156C  LYS*     4.8     0.2    -      -       -      -
    157C  THR      3.1    19.4    +      -       -      +
    159C  LEU*     3.0    24.4    -      -       -      +
    168C  SER      3.4     0.2    +      -       -      -
    169C  ASN*     1.3    73.5    -      -       -      +
    171C  ALA*     1.3    60.8    +      -       -      +
    142D  THR*     6.1     1.1    -      -       -      -
    171D  SER*     4.0     0.7    +      -       -      -
    193D  ARG*     2.9    53.8    +      -       -      -
    195D  ARG*     5.4     0.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 171 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    133C  LEU*     3.2    16.3    -      -       -      +
    134C  PHE*     2.9    36.0    +      -       +      +
    137C  PHE*     4.3     3.1    -      -       +      -
    143C  VAL*     3.7    35.0    -      -       +      -
    153C  ILE*     5.4     0.9    -      -       +      -
    154C  THR*     3.9    13.7    -      -       -      +
    155C  ASP      4.8     1.1    -      -       -      -
    156C  LYS*     4.0     8.0    -      -       +      +
    169C  ASN      4.2     0.8    -      -       -      -
    170C  SER*     1.3    73.7    -      -       -      +
    172C  VAL*     1.3    62.8    +      -       -      +
    193D  ARG*     4.9     1.3    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 172 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    131C  VAL*     3.8    21.3    -      -       +      +
    132C  CYS      4.3     2.7    -      -       -      +
    133C  LEU*     4.5    12.8    -      -       +      +
    134C  PHE*     4.7     1.1    -      -       -      +
    152C  TYR      4.1     0.5    -      -       -      +
    153C  ILE*     3.5     5.2    -      -       -      +
    154C  THR*     3.2    38.5    +      -       +      +
    171C  ALA*     1.3    79.0    -      -       -      +
    173C  ALA*     1.3    65.2    +      -       -      +
    174C  TRP*     4.3    10.1    +      -       +      +
    144D  VAL*     4.8    18.8    -      -       +      -
    146D  LEU*     6.3     1.3    -      -       +      -
    191D  SER*     3.5    24.7    -      -       -      +
    193D  ARG*     3.9    15.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 173 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    130C  SER      3.9     1.6    -      -       -      +
    131C  VAL      3.2    11.2    -      -       -      -
    132C  CYS*     2.8    33.3    +      -       +      +
    134C  PHE*     6.0     1.7    -      -       +      +
    145C  GLN*     5.3     0.7    -      -       -      +
    151C  VAL*     5.5     0.2    -      -       +      -
    152C  TYR      3.3     9.4    -      -       -      +
    153C  ILE*     3.9    17.7    -      -       +      -
    172C  VAL*     1.3    75.0    -      -       -      +
    174C  TRP*     1.3    59.8    +      -       -      +
    180C  PHE*     4.0    16.1    -      -       +      -
    188C  ASN*     5.0    13.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with TRP 174 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    128C  ASP*     4.7    11.5    +      -       +      -
    130C  SER*     3.8    25.8    -      -       -      -
    131C  VAL*     4.2     8.7    -      -       +      +
    152C  TYR*     2.9    80.4    +      +       +      +
    154C  THR*     5.0    10.5    -      -       +      -
    172C  VAL*     5.2    11.0    -      -       +      -
    173C  ALA*     1.3    74.4    -      -       -      +
    175C  SER*     1.3    69.8    +      -       -      +
    176C  ASN      5.3     0.4    -      -       -      +
    180C  PHE*     4.2     3.1    -      -       -      -
    146D  LEU*     3.3    39.5    -      -       +      +
    148D  THR*     3.8    12.8    -      -       +      +
    177D  LEU*     4.3     7.9    -      -       +      -
    189D  SER*     3.5    35.0    -      -       -      -
    190D  LEU*     6.1     0.2    -      -       -      -
    191D  SER*     4.6    13.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with SER 175 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    128C  ASP*     5.4     0.7    -      -       -      -
    129C  LYS      3.3     9.4    -      -       -      +
    130C  SER*     3.3    21.2    -      -       -      -
    150C  ASP      2.9    20.9    +      -       -      -
    151C  VAL*     3.5    26.6    -      -       -      +
    152C  TYR*     5.3     1.6    -      -       -      -
    174C  TRP*     1.3    88.9    -      -       -      +
    176C  ASN*     1.3    77.4    +      -       -      +
    177C  LYS*     3.7     7.3    +      -       -      +
    180C  PHE*     3.6    19.9    -      -       -      -
----------------------------------------------------------
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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