Contacts of the strand formed by residues 210 - 221 (chain A) in PDB entry 6CU0


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 GLN 210 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    133A  LEU      3.6     1.2    -      -       -      +
    134A  VAL*     3.5     1.6    -      -       -      -
    135A  VAL*     2.9    34.9    +      -       +      +
    167A  LEU*     3.9    30.3    -      -       +      +
    168A  GLN      3.4     5.3    -      -       -      +
    169A  PRO*     3.2    41.0    +      -       -      +
    171A  ARG*     5.1     7.3    -      -       -      +
    205A  HIS      4.9     1.4    +      -       -      -
    206A  LEU*     4.4     8.4    -      -       +      +
    207A  SER*     3.2    49.2    +      -       -      +
    208A  ALA      3.3     1.6    -      -       -      -
    209A  GLY*     1.3    77.0    -      -       -      +
    211A  ARG*     1.3    60.3    +      -       -      +
    212A  LEU*     3.9    16.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 211 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    130A  THR*     4.3    13.1    +      -       -      +
    132A  GLU*     2.8    48.1    +      -       +      +
    133A  LEU      3.2     7.9    -      -       -      +
    134A  VAL*     4.1    20.4    -      -       +      -
    166A  HIS      3.9     0.2    -      -       -      +
    168A  GLN*     2.9    69.7    +      -       -      +
    169A  PRO*     5.2     3.2    -      -       -      +
    209A  GLY      3.9    11.4    -      -       -      +
    210A  GLN*     1.3    74.6    -      -       -      +
    212A  LEU*     1.3    63.0    +      -       -      +
    213A  GLY      3.9     1.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with LEU 212 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    132A  GLU*     3.3     4.7    -      -       -      -
    133A  LEU*     2.8    51.2    +      -       +      +
    135A  VAL*     3.4    31.0    -      -       +      -
    143A  VAL*     4.5     6.7    -      -       +      -
    165A  LEU*     4.0    29.8    -      -       +      -
    166A  HIS      3.7     5.4    -      -       -      -
    167A  LEU*     3.7    17.0    -      -       +      -
    206A  LEU*     4.2    12.3    -      -       +      -
    210A  GLN*     3.8    16.6    -      -       +      +
    211A  ARG*     1.3    72.1    -      -       -      +
    213A  GLY*     1.3    58.0    +      -       -      +
    235A  LEU*     5.2     5.4    -      -       +      +
    237A  LEU*     3.8    26.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLY 213 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    109A  TRP*     5.8     0.7    -      -       -      -
    131A  LYS      4.2    12.8    -      -       -      -
    132A  GLU*     4.7     7.1    +      -       -      +
    164A  ALA      3.8     0.3    -      -       -      +
    165A  LEU*     3.5     2.9    -      -       -      -
    166A  HIS*     2.8    38.0    +      -       -      +
    211A  ARG      3.9     1.0    +      -       -      -
    212A  LEU*     1.3    74.3    -      -       -      +
    214A  VAL*     1.3    65.8    +      -       -      -
    215A  HIS*     4.2     9.8    +      -       -      -
    235A  LEU*     6.0     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 214 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106A  PRO*     3.4     6.5    -      -       -      +
    107A  LEU*     3.0    45.9    +      -       +      +
    109A  TRP*     3.6    31.9    -      -       +      +
    131A  LYS      4.9     1.8    +      -       -      -
    145A  PHE*     4.1    12.3    -      -       +      -
    163A  LEU*     4.1    24.5    -      -       +      -
    164A  ALA      3.4     9.2    -      -       -      +
    165A  LEU*     3.7    19.7    -      -       +      -
    213A  GLY*     1.3    75.1    -      -       -      -
    215A  HIS*     1.3    65.5    +      -       -      +
    235A  LEU*     3.8    13.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with HIS 215 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    105A  GLY*     4.4     3.8    -      -       -      -
    106A  PRO*     3.7    38.6    -      -       +      +
    162A  SER      3.5     4.7    -      -       -      +
    163A  LEU*     3.5     2.4    -      -       -      -
    164A  ALA*     2.8    38.9    +      -       +      +
    166A  HIS*     3.4    34.3    -      +       +      +
    213A  GLY*     4.2    12.7    +      -       -      -
    214A  VAL*     1.3    78.6    -      -       -      +
    216A  LEU*     1.3    61.8    +      -       -      +
    217A  HIS*     4.0     1.0    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 216 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     99A  ASN*     5.9     0.4    -      -       +      -
    101A  LEU      4.5     3.8    -      -       -      +
    102A  LEU*     4.1    18.4    -      -       +      -
    103A  ILE      3.8    29.4    -      -       -      +
    104A  ASP*     3.4     3.9    -      -       -      +
    105A  GLY      3.1    37.6    +      -       -      +
    106A  PRO*     4.7     0.2    -      -       -      +
    107A  LEU*     3.8    23.6    -      -       +      +
    147A  LEU*     5.1     0.2    -      -       +      -
    161A  VAL*     3.5    28.7    -      -       +      -
    162A  SER      3.3     3.6    -      -       -      +
    163A  LEU*     3.5    23.8    -      -       +      -
    214A  VAL      4.3     0.8    -      -       -      -
    215A  HIS*     1.3    71.9    -      -       -      +
    217A  HIS*     1.3    64.6    +      -       -      +
    218A  THR*     4.8     2.5    -      -       +      -
    228A  LEU*     4.6    13.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with HIS 217 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    104A  ASP*     3.4    27.1    +      -       -      +
    161A  VAL*     3.4     2.4    -      -       -      +
    162A  SER*     2.7    53.7    +      -       -      +
    215A  HIS      4.0     1.1    +      -       -      +
    216A  LEU*     1.3    74.6    -      -       -      +
    218A  THR*     1.3    85.1    +      -       -      +
    219A  GLU*     4.5     3.6    +      -       +      -
----------------------------------------------------------
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Residues in contact with THR 218 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    102A  LEU*     4.1    33.5    -      -       +      +
    103A  ILE      4.6     0.9    -      -       -      +
    104A  ASP*     2.9    29.6    +      -       -      +
    160A  SER      3.4    11.7    +      -       -      -
    161A  VAL*     4.2    14.4    -      -       -      +
    185A  LEU*     5.8     1.0    -      -       -      +
    216A  LEU*     4.8     5.4    -      -       +      -
    217A  HIS*     1.3    87.8    +      -       -      +
    219A  GLU*     1.3    58.4    +      -       -      +
    220A  ALA*     3.2    20.3    +      -       +      +
    223A  ARG*     4.4    10.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 219 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    158A  SER      4.0     0.9    -      -       -      +
    159A  GLY*     3.7     8.2    -      -       -      -
    160A  SER*     3.0    41.5    +      -       -      +
    162A  SER*     5.9     0.2    +      -       -      -
    185A  LEU*     5.7     0.7    -      -       -      +
    217A  HIS*     4.5     6.7    -      -       +      +
    218A  THR*     1.3    67.9    +      -       -      +
    220A  ALA*     1.3    62.9    +      -       -      +
    221A  ARG*     3.5     2.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 220 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    158A  SER      4.9     0.2    -      -       -      -
    218A  THR*     3.2    14.5    +      -       -      +
    219A  GLU*     1.3    70.1    -      -       -      +
    221A  ARG*     1.3    60.2    +      -       -      +
    222A  ALA      3.8     1.3    -      -       -      +
    223A  ARG*     3.6    31.0    -      -       +      +
----------------------------------------------------------
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Residues in contact with ARG 221 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    157A  GLY*     3.5     1.0    -      -       -      -
    158A  SER*     3.1    53.3    +      -       -      +
    159A  GLY*     5.2     1.3    -      -       -      -
    219A  GLU      3.5     1.2    +      -       -      +
    220A  ALA*     1.3    72.0    -      -       -      +
    222A  ALA*     1.3    65.7    -      -       -      +
    223A  ARG      4.2     0.8    -      -       -      +
----------------------------------------------------------
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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