Contacts of the strand formed by residues 214 - 224 (chain B) in PDB entry 4EOH


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 VAL 214 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    206B  ARG*     3.6    32.1    -      -       -      +
    207B  ARG      3.4    11.7    -      -       -      +
    208B  ARG*     3.6    42.2    -      -       +      +
    212B  GLY      3.8     0.2    +      -       -      -
    213B  SER*     1.3    70.8    -      -       -      +
    215B  VAL*     1.3    68.2    +      -       -      +
    404B  MPD      4.5    16.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 215 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    205B  GLN      3.9     0.3    -      -       -      +
    206B  ARG*     3.3     5.5    -      -       -      +
    207B  ARG*     2.8    60.8    +      -       +      +
    209B  ASN*     4.3    20.4    -      -       +      +
    213B  SER*     4.1    15.3    -      -       -      +
    214B  VAL*     1.3    79.6    -      -       -      +
    216B  MET*     1.3    64.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with MET 216 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    173B  ASP*     3.5    22.0    -      -       -      +
    176B  HIS*     3.6     9.0    -      -       +      -
    204B  SER*     3.4    19.3    -      -       -      +
    205B  GLN      3.2     9.4    -      -       -      +
    206B  ARG*     3.3    40.8    -      -       +      +
    215B  VAL*     1.3    81.1    -      -       -      +
    217B  GLU*     1.3    65.3    +      -       -      +
    218B  ARG*     3.7    27.2    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 217 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    204B  SER*     3.3     3.3    -      -       -      -
    205B  GLN      2.8    31.8    +      -       -      +
    207B  ARG*     2.7    52.0    +      -       -      +
    216B  MET*     1.3    73.6    -      -       -      +
    218B  ARG*     1.3    64.6    +      -       -      +
    219B  ILE*     4.1     8.6    -      -       +      +
    250B  ASN      3.8     1.6    -      -       -      +
    251B  ASN*     3.9     4.0    -      -       -      +
    252B  LEU*     3.1    25.4    +      -       +      +
    253B  LYS*     3.2    30.8    +      -       -      +
    311B  VAL*     6.2     2.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with ARG 218 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    169B  LEU*     3.7    46.3    +      -       +      +
    172B  MET*     6.2     0.6    -      -       -      +
    173B  ASP*     3.1    36.6    +      -       -      -
    203B  GLY      3.2     6.1    -      -       -      +
    204B  SER*     4.0    17.2    +      -       -      +
    216B  MET*     3.7    20.3    +      -       +      +
    217B  GLU*     1.3    79.3    -      -       -      +
    219B  ILE*     1.3    68.6    +      -       -      +
    311B  VAL*     3.9     3.5    -      -       -      +
    312B  LEU*     2.9    57.1    +      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 219 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    169B  LEU*     5.8     0.5    -      -       -      +
    201B  VAL*     4.6     3.8    -      -       +      +
    202B  LEU*     3.5     5.5    -      -       -      +
    203B  GLY*     2.9    40.8    +      -       -      +
    217B  GLU*     4.1    12.8    -      -       +      +
    218B  ARG*     1.3    80.9    -      -       -      +
    220B  ARG*     1.3    69.6    +      -       -      +
    221B  MET*     4.2    17.7    -      -       +      -
    252B  LEU*     3.9    21.8    -      -       +      -
    253B  LYS*     4.0    32.3    -      -       +      +
    256B  CYS*     4.2    20.4    -      -       +      -
    309B  ALA*     4.1     6.7    -      -       +      -
    310B  THR      3.4    11.4    -      -       -      +
    311B  VAL*     5.0     4.9    -      -       +      -
    312B  LEU*     3.9     8.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 220 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    165B  GLN*     2.5    44.8    +      -       -      +
    190B  LEU*     5.6     2.4    -      -       -      +
    191B  PRO      3.2    18.8    +      -       -      -
    193B  PRO*     3.5    13.2    -      -       -      +
    200B  ILE*     3.0    39.1    -      -       +      +
    201B  VAL      3.2     6.7    -      -       -      +
    202B  LEU*     3.7    11.4    -      -       +      -
    219B  ILE*     1.3    77.7    -      -       -      +
    221B  MET*     1.3    67.1    +      -       -      +
    222B  ASP*     3.0    24.9    +      -       -      +
    309B  ALA*     3.2     4.2    -      -       -      -
    310B  THR*     2.7    51.2    +      -       -      +
    312B  LEU*     3.7    16.6    -      -       +      -
    405B  MPD      3.9    16.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with MET 221 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    200B  ILE*     3.4     5.5    -      -       -      +
    201B  VAL*     2.8    40.5    +      -       +      +
    219B  ILE*     4.2     7.0    -      -       +      -
    220B  ARG*     1.3    80.1    -      -       -      +
    222B  ASP*     1.3    67.0    +      -       -      +
    223B  ILE*     3.3    15.7    -      -       +      +
    256B  CYS*     3.8    26.7    -      -       -      +
    257B  GLU*     4.0    11.7    -      -       +      -
    260B  VAL*     3.7    31.4    -      -       +      -
    307B  VAL*     3.3    41.1    -      -       +      -
    308B  GLN      5.1     2.5    -      -       -      -
    309B  ALA*     3.5    18.8    -      -       +      +
    310B  THR*     6.2     0.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with ASP 222 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    192B  SER*     2.6    27.6    +      -       -      +
    193B  PRO*     3.4     8.2    -      -       -      +
    194B  GLN*     3.6    22.6    -      -       -      +
    198B  TYR*     3.7    10.2    -      -       +      -
    199B  LEU      3.4     5.8    -      -       -      +
    200B  ILE*     2.8    16.0    -      -       -      +
    220B  ARG*     3.0    30.7    +      -       -      +
    221B  MET*     1.3    72.5    -      -       -      +
    223B  ILE*     1.3    61.3    +      -       -      +
    307B  VAL*     4.7     8.2    -      -       -      +
    308B  GLN      5.7     0.4    +      -       -      -
    310B  THR*     5.1     5.2    +      -       -      +
    411B  MPD      4.0    10.4    -      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 223 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    198B  TYR*     3.2     3.5    -      -       -      -
    199B  LEU*     2.7    53.8    +      -       +      +
    201B  VAL*     3.7    21.1    -      -       +      -
    221B  MET*     3.3    38.8    -      -       +      +
    222B  ASP*     1.3    75.0    -      -       -      +
    224B  ARG*     1.3    66.6    +      -       -      +
    225B  LYS      3.4     0.2    +      -       -      -
    260B  VAL*     3.9    23.1    -      -       +      -
    307B  VAL*     5.1     4.0    -      -       +      -
    408B  MPD      4.3     9.2    -      -       +      -
    410B  MPD      3.2    36.1    -      -       +      -
    411B  MPD      3.2     9.4    -      -       -      +
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Residues in contact with ARG 224 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    197B  ASN*     3.0    53.5    +      -       -      +
    198B  TYR*     3.2    42.0    +      -       +      -
    199B  LEU*     5.1     0.5    -      -       -      +
    223B  ILE*     1.3    73.5    -      -       -      +
    225B  LYS*     1.3    75.6    +      -       -      +
    226B  VAL*     4.2     0.2    -      -       -      +
    410B  MPD      2.7    39.4    -      -       +      +
    411B  MPD      2.9    34.2    +      -       +      +
----------------------------------------------------------
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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