Contacts of the strand formed by residues 183 - 192 (chain A) in PDB entry 3GG0


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 ARG 183 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    177A  VAL*     3.6     1.7    -      -       -      -
    178A  GLU*     2.7    70.5    +      -       -      +
    181A  LYS*     3.1    25.3    -      -       +      +
    182A  LYS*     1.3    77.5    -      -       -      +
    184A  VAL*     1.3    69.7    +      -       -      +
    185A  SER*     3.5    34.6    +      -       -      +
    234A  HIS*     5.8     1.3    -      -       +      +
    377A  LEU*     4.6     4.9    -      -       -      +
    396A  TRP*     3.4     5.6    -      -       -      -
    119B  GLU*     3.9    33.6    +      -       -      +
    121B  VAL*     4.3    16.9    -      -       -      +
    122B  ASN*     4.6     7.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 184 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    175A  ALA*     4.2     7.2    -      -       +      -
    176A  ILE      3.8     6.3    -      -       -      +
    177A  VAL*     4.5     2.0    -      -       +      +
    182A  LYS      4.4     0.2    +      -       -      -
    183A  ARG*     1.3    86.1    +      -       -      +
    185A  SER*     1.3    60.8    +      -       -      +
    186A  SER      3.8    17.0    -      -       -      +
    187A  PHE*     3.7    34.5    -      -       +      -
    234A  HIS*     3.3    28.8    +      -       +      +
    394A  ILE*     3.6    30.3    -      -       +      -
    396A  TRP*     4.8     7.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with SER 185 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    176A  ILE*     2.8    27.9    +      -       -      -
    177A  VAL      4.9     2.0    -      -       -      -
    178A  GLU      5.0     0.2    -      -       -      -
    183A  ARG*     3.5    32.4    +      -       -      +
    184A  VAL*     1.3    75.9    -      -       -      +
    186A  SER*     1.3    62.2    +      -       -      -
    233A  LYS      5.3     0.2    -      -       -      +
    234A  HIS*     3.9     6.2    -      -       -      -
    235A  GLN*     3.5    18.0    +      -       -      +
    321A  LYS*     4.5     5.2    +      -       -      -
    377A  LEU*     4.0    21.6    -      -       -      +
    122B  ASN*     4.1    14.9    +      -       -      -
----------------------------------------------------------
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Residues in contact with SER 186 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    175A  ALA*     3.5     3.3    -      -       -      -
    176A  ILE*     2.7    55.2    +      -       -      +
    184A  VAL*     3.7     4.2    -      -       -      +
    185A  SER*     1.3    80.9    -      -       -      +
    187A  PHE*     1.3    63.8    +      -       -      +
    234A  HIS*     4.6     2.0    -      -       -      -
    235A  GLN*     3.3    36.3    -      -       -      +
    237A  ALA*     5.0     5.8    -      -       -      +
    321A  LYS*     3.7    13.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with PHE 187 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    173A  LEU*     4.0    31.0    -      -       +      -
    174A  GLN      3.3     5.4    -      -       -      +
    175A  ALA*     3.8    29.2    -      -       +      -
    176A  ILE*     4.3     0.7    -      -       -      -
    184A  VAL*     3.7    26.5    -      -       +      -
    186A  SER*     1.3    76.5    -      -       -      +
    188A  GLU*     1.3    60.3    +      -       -      +
    229A  LEU*     4.9     4.0    -      -       +      -
    231A  LEU*     4.1    21.3    -      -       +      -
    234A  HIS*     4.3    19.3    -      +       +      -
    235A  GLN      3.1     6.5    +      -       -      +
    236A  LEU*     3.6     8.8    -      -       +      +
    237A  ALA*     2.8    26.9    +      -       -      +
    391A  ILE*     3.7    48.0    -      -       +      -
    392A  GLY      5.6     0.4    -      -       -      -
    394A  ILE*     5.3     0.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 188 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    172A  ALA      3.5     0.3    -      -       -      +
    173A  LEU*     3.3     7.6    -      -       -      -
    174A  GLN*     2.7    33.1    +      -       +      +
    176A  ILE*     4.0     8.6    -      -       +      +
    187A  PHE*     1.3    72.8    -      -       -      +
    189A  ALA*     1.3    63.6    +      -       -      +
    190A  LEU*     3.4    15.4    +      -       +      +
    237A  ALA*     3.6     8.5    -      -       +      +
    239A  ASN*     2.7    20.0    +      -       -      +
    272A  GLU*     3.3    15.7    -      -       -      +
    323A  LYS*     2.8    11.1    +      -       -      -
    379A  GLN*     2.7    39.4    +      -       -      +
    501A  C2E      2.9     6.8    +      -       -      +
    502A   MN      2.1    34.5    +      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 189 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    171A  PHE*     3.7    22.5    -      -       +      -
    172A  ALA      3.4     5.6    -      -       -      +
    173A  LEU*     3.9    13.4    -      -       +      +
    187A  PHE      4.0     1.6    +      -       -      -
    188A  GLU*     1.3    71.6    -      -       -      +
    190A  LEU*     1.3    59.7    +      -       -      +
    219A  LYS*     6.1     0.2    -      -       -      -
    222A  ALA*     4.0     7.6    -      -       +      +
    225A  LEU*     6.1     0.2    -      -       +      -
    236A  LEU*     4.3     3.6    -      -       +      -
    237A  ALA      2.9    16.5    +      -       -      +
    238A  ILE*     3.8    19.0    -      -       +      +
    239A  ASN*     3.3    24.3    +      -       -      -
    501A  C2E      4.2     2.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 190 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    171A  PHE*     3.4     2.6    -      -       -      -
    172A  ALA      2.8    39.2    +      -       -      +
    174A  GLN*     4.2    17.7    -      -       +      +
    188A  GLU*     3.4    36.1    -      -       -      +
    189A  ALA*     1.3    73.2    -      -       -      +
    191A  ILE*     1.3    65.6    +      -       -      +
    192A  ARG*     3.4    17.0    +      -       -      +
    239A  ASN*     3.8     2.2    -      -       -      +
    386A  PRO*     4.1    13.2    -      -       +      -
    501A  C2E      3.3    72.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 191 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    169A  CYS*     4.3     3.8    -      -       +      -
    170A  GLN      3.9     3.4    -      -       -      +
    171A  PHE*     3.5    20.1    -      -       +      -
    190A  LEU*     1.3    69.5    -      -       -      +
    192A  ARG*     1.3    80.6    +      -       -      +
    199A  PRO*     3.4    30.1    -      -       +      +
    202A  MET*     3.9    23.8    -      -       +      -
    203A  PHE*     4.1    15.9    -      -       +      -
    214A  PHE*     4.0     7.9    -      -       +      -
    218A  SER*     3.6    32.8    -      -       -      +
    501A  C2E      3.0    40.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with ARG 192 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    169A  CYS*     3.8     0.7    -      -       -      +
    170A  GLN*     2.6    32.4    +      -       +      +
    172A  ALA*     3.9    15.6    -      -       -      +
    190A  LEU*     3.4    18.7    +      -       -      +
    191A  ILE*     1.3    90.7    +      -       -      +
    193A  SER*     1.3    70.8    +      -       -      +
    196A  GLY      4.0    12.8    -      -       -      -
    197A  GLY      3.2    20.4    -      -       -      +
    198A  SER*     4.7     1.8    -      -       -      +
    199A  PRO*     3.6     8.0    -      -       -      +
    202A  MET*     3.7    12.8    -      -       -      +
    386A  PRO*     3.6    30.1    -      -       -      +
    388A  LEU*     3.9    28.3    -      -       +      -
    501A  C2E      3.1    35.3    +      -       -      -
----------------------------------------------------------
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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