Contacts of the strand formed by residues 153 - 162 (chain C) in PDB entry 6A5T


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 LEU 153 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     50C  ILE*     5.8     1.8    -      -       +      -
     52C  MET      3.6     8.7    -      -       -      +
     53C  ASN*     4.6    15.9    -      -       +      +
     55C  SER*     5.1     2.2    -      -       -      -
     62C  ILE*     4.0    28.0    -      -       +      -
    100C  LEU*     5.0     4.9    -      -       +      -
    101C  SER*     3.1     5.5    +      -       -      -
    102C  ALA      2.9    37.3    +      -       -      +
    113C  VAL*     5.1    11.0    -      -       +      -
    144C  LEU*     6.5     0.4    -      -       +      -
    145C  CYS*     4.4    19.7    -      -       +      -
    147C  LEU*     4.3    14.6    -      -       +      -
    152C  GLU*     1.3    77.8    -      -       -      +
    154C  ASN*     1.3    71.5    +      -       -      +
    155C  ILE*     3.5    34.5    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 154 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     51C  LYS*     3.3    22.1    +      -       -      +
     52C  MET*     2.9    46.5    +      -       +      +
     99C  GLU*     5.8     4.2    -      -       -      +
    100C  LEU      3.5     4.1    -      -       -      +
    101C  SER*     3.1    28.8    +      -       -      +
    103C  ARG*     5.5     1.6    -      -       -      +
    152C  GLU*     4.3    10.9    +      -       -      +
    153C  LEU*     1.3    73.8    -      -       -      +
    155C  ILE*     1.3    70.1    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 155 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     48C  VAL*     5.2     4.0    -      -       +      -
     49C  GLU      4.5     4.7    -      -       -      -
     50C  ILE*     3.8    26.0    -      -       +      -
     51C  LYS*     4.6     2.2    -      -       -      +
     62C  ILE*     4.6     9.9    -      -       +      -
     66C  LEU*     3.6    33.9    -      -       +      -
     98C  LEU      4.2     0.2    -      -       -      +
     99C  GLU*     3.5     4.8    -      -       -      +
    100C  LEU*     2.9    66.9    +      -       +      +
    144C  LEU*     6.0     1.6    -      -       +      -
    153C  LEU*     3.5    24.7    -      -       +      -
    154C  ASN*     1.3    83.5    +      -       -      +
    156C  ARG*     1.3    62.9    +      -       -      +
    157C  CYS*     5.1     3.6    -      -       -      -
----------------------------------------------------------
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Residues in contact with ARG 156 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     47C  LEU      4.8     0.2    -      -       -      -
     48C  VAL*     3.7     1.4    -      -       -      +
     49C  GLU*     3.0    54.7    +      -       +      +
     51C  LYS*     4.7    23.6    -      -       +      +
     90C  TYR*     3.3    37.3    +      -       -      -
     97C  VAL*     3.6    25.1    -      -       +      +
     98C  LEU      3.7     2.9    -      -       -      -
     99C  GLU*     3.2    33.2    +      -       +      +
    155C  ILE*     1.3    74.4    -      -       -      +
    157C  CYS*     1.3    72.8    +      -       -      +
    158C  ILE*     5.7     1.5    -      -       +      +
     66L  MET*     5.7     2.8    -      -       -      -
----------------------------------------------------------
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Residues in contact with CYS 157 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45C  ILE*     4.2    22.9    -      -       +      -
     47C  LEU      3.9     3.6    -      -       -      -
     48C  VAL*     4.4     9.4    -      -       -      -
     66C  LEU*     4.0    28.3    -      -       -      -
     97C  VAL*     3.2    10.8    -      -       -      +
     98C  LEU*     2.9    47.9    +      -       +      +
    118C  LEU*     5.3     4.9    -      -       -      -
    155C  ILE*     5.0     6.1    -      -       -      -
    156C  ARG*     1.3    87.4    -      -       -      +
    158C  ILE*     1.3    70.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 158 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     45C  ILE*     3.4     9.7    -      -       -      +
     46C  ASP      3.2    18.8    +      -       -      -
     47C  LEU*     3.3    32.4    +      -       +      +
     49C  GLU*     5.4     2.2    -      -       -      +
     90C  TYR*     3.3    55.0    -      -       +      -
     95C  SER*     4.1     8.3    -      -       -      -
     96C  VAL      4.1     0.2    -      -       -      -
     97C  VAL*     3.5    22.7    -      -       +      -
    156C  ARG*     5.7     0.9    -      -       +      +
    157C  CYS*     1.3    78.9    -      -       -      +
    159C  ALA*     1.3    63.5    +      -       -      +
    160C  LYS*     3.6    37.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ALA 159 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     43C  LEU*     4.3     9.3    -      -       +      +
     44C  ALA      3.2    20.0    -      -       -      +
     45C  ILE*     4.4     2.0    -      -       +      +
     46C  ASP      4.4     0.4    -      -       -      +
     71C  LEU*     4.5    10.1    -      -       +      -
     79C  MET*     4.2     3.1    -      -       -      +
     95C  SER*     3.3     9.5    -      -       -      -
     96C  VAL*     3.1    39.8    +      -       +      +
     98C  LEU*     4.1    13.5    -      -       +      -
    130C  GLY*     6.0     0.7    -      -       -      -
    158C  ILE*     1.3    77.0    -      -       -      +
    160C  LYS*     1.3    63.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 160 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     43C  LEU*     3.2     9.9    -      -       -      +
     44C  ALA      2.9    30.4    +      -       -      +
     46C  ASP*     3.6    27.9    +      -       +      +
     47C  LEU*     3.9    19.8    -      -       -      +
     79C  MET*     5.1     0.2    -      -       -      -
     82C  SER*     3.0    34.5    +      -       -      +
     89C  ASP*     4.3    11.3    +      -       -      -
     90C  TYR*     4.9    10.2    -      -       -      +
     94C  CYS*     4.1    18.2    -      -       -      +
    158C  ILE*     3.6    23.6    -      -       +      -
    159C  ALA*     1.3    78.9    -      -       -      +
    161C  LYS*     1.3    62.0    +      -       -      +
    162C  GLY      4.0     0.4    -      -       -      -
    170C  TRP*     3.3     9.4    +      -       +      -
----------------------------------------------------------
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Residues in contact with LYS 161 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     41C  PRO*     3.6    27.8    -      -       +      -
     42C  THR      3.2    14.4    -      -       -      +
     43C  LEU*     3.8     9.6    -      -       +      -
     76C  VAL*     2.6    37.4    +      -       +      +
     77C  GLU*     3.0    24.3    +      -       -      +
     79C  MET*     3.2    31.5    +      -       +      +
     80C  LYS      4.7     7.6    +      -       -      +
     81C  TYR*     3.6    33.5    -      -       +      -
     82C  SER*     4.5    10.3    +      -       -      +
     94C  CYS      5.5     0.4    +      -       -      -
    160C  LYS*     1.3    75.8    -      -       -      +
    162C  GLY*     1.3    59.7    +      -       -      +
    170C  TRP*     3.7     0.9    -      -       -      -
----------------------------------------------------------
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Residues in contact with GLY 162 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     41C  PRO*     3.5     3.8    -      -       -      +
     42C  THR      3.0    15.5    +      -       -      -
     81C  TYR*     4.7     3.1    -      -       -      -
    161C  LYS*     1.3    75.2    -      -       -      +
    163C  ILE*     1.3    64.0    +      -       -      -
    166C  GLU*     3.4    15.9    -      -       -      -
    170C  TRP*     2.8    39.9    -      -       -      +
----------------------------------------------------------
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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