Contacts of the strand formed by residues 177 - 186 (chain E) in PDB entry 4S0H


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 HIS 177 (chain E).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    110E  ASP      5.6     2.0    -      -       -      +
    112E  HIS      3.9     9.6    +      -       -      +
    113E  ARG*     4.1    23.5    -      -       +      +
    114E  TYR*     4.8     0.4    -      -       -      -
    127E  ALA*     3.3    30.5    -      -       +      -
    128E  GLU*     2.8    44.2    +      -       +      +
    174E  ASN*     3.2    22.0    +      -       +      +
    175E  SER      3.0    17.6    +      -       -      -
    176E  MET*     1.3    82.0    -      -       -      +
    178E  LYS*     1.3    62.9    +      -       -      +
    179E  TYR*     3.5    18.6    -      -       +      +
    212E  ILE*     3.4     4.7    -      -       -      -
    213E  ALA      3.0    24.6    +      -       -      -
----------------------------------------------------------
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Residues in contact with LYS 178 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     68E  HIS*     5.7     5.1    -      -       -      -
    108E  PRO*     3.7     3.8    -      -       -      +
    109E  ALA*     2.8    37.8    +      -       +      +
    110E  ASP*     3.9    20.7    +      -       -      +
    112E  HIS      4.6     1.6    +      -       -      -
    114E  TYR*     3.8    33.6    -      -       +      +
    177E  HIS*     1.3    77.1    -      -       -      +
    179E  TYR*     1.3    67.2    +      -       -      +
    210E  ALA*     4.2    20.0    -      -       -      +
    211E  PHE      3.3    12.4    -      -       -      +
    212E  ILE*     4.1    17.0    -      -       +      +
----------------------------------------------------------
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Residues in contact with TYR 179 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106E  ILE*     3.6    29.4    -      -       +      -
    107E  VAL      3.6    12.6    -      -       -      -
    108E  PRO*     4.1    15.5    -      -       +      -
    109E  ALA*     4.2     3.9    -      -       -      +
    173E  LEU*     3.5    19.6    -      -       +      -
    174E  ASN*     2.4    58.3    +      -       -      +
    177E  HIS*     3.5    26.4    -      -       +      +
    178E  LYS*     1.3    77.0    -      -       -      +
    180E  GLN*     1.3    61.2    +      -       -      +
    181E  PRO*     4.3     1.3    -      -       -      -
    210E  ALA*     3.2     7.1    -      -       -      +
    211E  PHE*     2.5    47.2    +      +       +      +
    213E  ALA*     3.6    20.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLN 180 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    106E  ILE*     4.4     1.1    -      -       -      -
    107E  VAL*     2.7    45.7    +      -       +      +
    108E  PRO      5.0     0.2    -      -       -      -
    109E  ALA*     4.6    11.8    -      -       +      +
    179E  TYR*     1.3    75.2    -      -       -      +
    181E  PRO*     1.4    96.1    +      -       -      +
    182E  ARG*     3.7     4.6    +      -       +      -
    205E  VAL*     3.5    25.3    -      -       +      +
    206E  PHE      3.1    22.6    +      -       -      -
    207E  PRO*     3.8    12.1    -      -       -      +
    209E  THR*     3.6     0.8    +      -       -      -
    210E  ALA*     3.4    19.8    -      -       +      +
----------------------------------------------------------
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Residues in contact with PRO 181 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     64E  TRP*     5.9     0.2    -      -       +      -
     83E  MET*     4.8     7.0    -      -       -      -
     87E  TYR*     4.3    18.7    +      -       +      -
    104E  MET*     4.5     7.4    -      -       +      -
    105E  ASP      3.6     6.5    -      -       -      +
    106E  ILE*     3.8    16.8    -      -       +      -
    180E  GLN*     1.4   110.5    +      -       -      +
    182E  ARG*     1.3    61.5    +      -       -      +
    204E  HIS      4.5     0.2    -      -       -      +
    205E  VAL*     4.3     6.8    -      -       -      +
    206E  PHE      4.8     0.2    +      -       -      -
    209E  THR*     3.1    40.4    +      -       -      +
    211E  PHE*     3.5    20.4    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 182 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    101A  ILE*     3.8    12.7    -      -       -      +
    186A  VAL*     4.1     5.3    -      -       -      +
    187A  LYS*     2.8    30.1    +      -       -      +
    188A  ALA*     4.4     3.7    +      -       -      +
     87E  TYR*     4.7     0.9    -      -       -      -
    104E  MET*     3.0    22.0    -      -       -      +
    105E  ASP*     2.7    53.2    +      -       -      +
    107E  VAL*     3.3    33.7    -      -       +      +
    180E  GLN*     3.8    11.9    -      -       +      +
    181E  PRO*     1.3    80.6    -      -       -      +
    183E  LEU*     1.3    60.7    +      -       -      +
    184E  HIS*     3.6    28.9    +      -       +      +
    203E  THR*     4.1     8.7    -      -       +      +
    204E  HIS      3.7     4.3    -      -       -      +
    205E  VAL*     3.8    25.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 183 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     56E  VAL*     3.9    38.8    -      -       +      -
     87E  TYR*     4.0    18.2    +      -       +      +
     89E  VAL*     4.3    13.0    -      -       +      -
     91E  VAL*     5.0     1.1    -      -       +      -
    102E  LEU*     4.1    14.6    -      -       +      -
    103E  LEU      3.3    19.1    -      -       -      +
    104E  MET*     4.2     1.6    -      -       +      -
    155E  PHE*     3.4    29.4    -      -       +      -
    182E  ARG*     1.3    73.0    -      -       -      +
    184E  HIS*     1.3    68.1    +      -       -      +
    185E  ILE*     4.3    12.6    -      -       +      -
    202E  CYS      4.1     0.3    -      -       -      -
    203E  THR*     3.1     6.4    -      -       -      -
    204E  HIS*     2.8    40.1    +      -       +      +
    206E  PHE*     6.1     0.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with HIS 184 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    186A  VAL*     4.2     9.8    -      -       +      +
    201A  PHE*     3.7    15.8    -      +       +      -
    101E  ILE      3.7     1.0    -      -       -      +
    102E  LEU*     3.6     4.5    -      -       -      -
    103E  LEU*     3.0    61.8    +      -       +      +
    105E  ASP*     2.6    35.7    +      -       -      -
    135E  LEU*     5.4     0.4    -      -       +      -
    182E  ARG*     3.6    32.7    -      -       -      +
    183E  LEU*     1.3    77.0    -      -       -      +
    185E  ILE*     1.3    63.1    +      -       -      +
    186E  VAL*     3.9     0.7    -      -       +      -
    202E  CYS      3.0     5.8    +      -       -      +
    203E  THR*     2.8    33.7    +      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 185 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     54E  ILE*     4.6    22.7    -      -       +      -
     56E  VAL*     4.5    13.9    -      -       +      -
     91E  VAL*     4.7    14.1    -      -       +      -
     94E  LEU*     4.6     6.7    -      -       +      -
    100E  TYR*     3.5    32.3    -      -       +      -
    101E  ILE      3.5     2.9    -      -       -      -
    102E  LEU*     3.9    27.6    -      -       +      -
    183E  LEU*     4.3    19.5    -      -       +      -
    184E  HIS*     1.3    74.8    -      -       -      +
    186E  VAL*     1.3    62.2    +      -       -      +
    200E  ALA      3.5    18.7    -      -       -      +
    202E  CYS*     3.0    23.4    +      -       +      -
    204E  HIS*     4.6     9.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 186 (chain E). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    105A  ASP*     4.2     5.6    -      -       -      +
    135A  LEU*     5.1     9.4    -      -       +      -
    182A  ARG*     3.2    24.7    -      -       -      +
    184A  HIS*     4.0     9.2    -      -       +      +
    201A  PHE*     4.0    19.3    -      -       +      -
    100E  TYR*     3.2    14.1    -      -       -      -
    101E  ILE*     2.9    38.2    +      -       +      +
    103E  LEU*     3.8    28.7    -      -       +      -
    184E  HIS*     5.0     0.7    -      -       +      -
    185E  ILE*     1.3    75.3    -      -       -      +
    187E  LYS*     1.3    75.8    +      -       -      +
    200E  ALA*     4.6     0.2    -      -       -      -
    201E  PHE*     3.3    15.0    -      -       +      -
----------------------------------------------------------
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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