Contacts of the strand formed by residues 53 - 71 (chain A) in PDB entry 2EIE


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 53 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     19A  ASP*     2.7    30.6    +      -       -      +
     20A  SER*     4.7     0.2    -      -       -      -
     39A  TRP*     4.4     3.1    -      -       +      -
     41A  THR*     3.6    22.4    +      -       +      +
     49A  PRO*     2.9    27.7    +      -       +      -
     50A  LYS      3.3    13.8    +      -       -      -
     51A  PRO*     3.8    13.2    -      -       +      -
     52A  PRO*     1.3    73.2    +      -       -      +
     54A  THR*     1.3    65.0    +      -       -      +
    126A  LEU      4.0     0.3    -      -       -      +
    127A  VAL*     3.5     0.9    -      -       -      +
    128A  ALA*     2.8    34.0    +      -       +      +
    136A  PRO      2.8    28.0    +      -       -      -
    138A  THR*     3.1    42.2    -      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with THR 54 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     17A  THR      3.8     0.2    -      -       -      +
     18A  CYS*     3.3    24.6    -      -       -      -
     19A  ASP*     3.0    20.8    +      -       -      +
     39A  TRP*     3.9     7.0    -      -       -      -
     52A  PRO*     4.8     2.9    -      -       -      +
     53A  HIS*     1.3    77.7    +      -       -      +
     55A  TYR*     1.3    62.4    +      -       -      +
     56A  THR*     3.6    12.3    -      -       -      +
    125A  ARG*     3.5    40.6    -      -       +      +
    126A  LEU      3.5     3.8    -      -       -      +
    127A  VAL*     4.1    14.7    -      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with TYR 55 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     16A  VAL*     3.5    24.8    -      -       +      +
     17A  THR      3.6     1.8    -      -       -      -
     18A  CYS*     3.3    24.0    -      -       -      -
     27A  CYS*     2.8    33.2    +      -       -      -
     30A  ALA*     3.4    23.1    -      -       +      +
     31A  ILE*     3.7     8.8    -      -       -      +
     39A  TRP*     3.5    25.8    -      +       +      -
     54A  THR*     1.3    73.6    -      -       -      +
     56A  THR*     1.3    63.3    +      -       -      +
     57A  ILE*     3.7    27.3    +      -       +      +
    124A  VAL      4.0     0.9    -      -       -      +
    125A  ARG*     3.4     1.9    -      -       -      -
    126A  LEU*     2.9    46.9    +      -       +      +
    140A  ILE*     4.5     7.0    -      -       +      -
    143A  ILE*     3.7    21.7    -      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with THR 56 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     15A  ALA      4.0     0.2    -      -       -      +
     16A  VAL*     3.3     7.4    -      -       -      +
     17A  THR*     2.8    50.1    +      -       -      +
     54A  THR*     3.6     5.5    -      -       -      +
     55A  TYR*     1.3    74.0    -      -       -      +
     57A  ILE*     1.3    68.9    +      -       -      +
     58A  ASP*     6.3     0.2    -      -       +      -
     96A  TRP*     3.7    32.1    -      -       +      -
    123A  TYR*     5.2     4.9    -      -       +      -
    124A  VAL      3.5     3.4    -      -       -      +
    125A  ARG*     2.9    30.0    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ILE 57 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     14A  TRP*     3.4    50.7    -      -       +      -
     15A  ALA      3.7     5.2    -      -       -      +
     16A  VAL*     4.0     4.7    -      -       +      -
     55A  TYR*     3.7    28.0    -      -       +      +
     56A  THR*     1.3    80.3    -      -       -      +
     58A  ASP*     1.3    64.9    +      -       -      +
     59A  MET*     3.8    13.3    +      -       +      +
    123A  TYR*     3.3     9.1    -      -       -      +
    124A  VAL*     2.7    47.0    +      -       +      +
    143A  ILE*     4.1    19.5    -      -       +      -
    145A  VAL*     4.0    16.8    -      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with ASP 58 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     14A  TRP*     3.5     4.2    -      -       -      -
     15A  ALA*     2.8    43.1    +      -       +      +
     56A  THR*     6.3     0.2    -      -       +      -
     57A  ILE*     1.3    73.0    -      -       -      +
     59A  MET*     1.3    59.4    +      -       -      +
     60A  LYS*     3.0    23.9    +      -       -      +
    122A  ARG*     2.9    42.4    +      -       -      +
    123A  TYR*     3.5    26.9    +      -       +      -
----------------------------------------------------------
 Back to top of page

Residues in contact with MET 59 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      9A  ILE*     3.9    24.2    -      -       +      -
     13A  ASN*     5.4     2.1    -      -       -      +
     14A  TRP*     3.7    42.1    +      -       +      +
     57A  ILE*     3.9    10.3    -      -       +      -
     58A  ASP*     1.3    70.5    -      -       -      +
     60A  LYS*     1.3    58.0    +      -       -      +
     61A  THR*     2.8    25.7    +      -       -      +
     63A  GLN*     3.8    14.8    +      -       +      -
     65A  VAL*     3.7    19.3    -      -       +      -
    121A  ALA      3.3    26.7    -      -       -      +
    122A  ARG*     3.0    20.0    +      -       -      +
    124A  VAL*     3.8    13.0    -      -       +      -
    145A  VAL*     4.1     9.4    -      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with LYS 60 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     13A  ASN*     2.8    45.1    +      -       +      +
     14A  TRP      4.7     0.2    -      -       -      -
     15A  ALA*     3.7    26.4    -      -       -      +
     58A  ASP*     3.0    29.2    +      -       -      +
     59A  MET*     1.3    76.7    -      -       -      +
     61A  THR*     1.3    61.4    +      -       -      +
    122A  ARG*     3.4    31.0    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with THR 61 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     59A  MET*     2.8    14.4    +      -       -      +
     60A  LYS*     1.3    78.7    +      -       -      +
     62A  THR*     1.3    77.7    +      -       -      +
     63A  GLN*     3.3    30.3    +      -       -      +
    122A  ARG*     3.7    17.2    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with THR 62 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     61A  THR*     1.3    79.9    -      -       -      +
     63A  GLN*     1.3    72.8    +      -       -      +
     64A  ASN*     5.7     0.7    -      -       -      +
    120A  PRO*     4.1    15.3    -      -       +      -
    121A  ALA*     3.6    26.7    -      -       -      +
    122A  ARG*     4.3     9.7    +      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLN 63 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      9A  ILE*     3.8    35.5    -      -       +      +
     59A  MET*     3.8    24.4    +      -       +      +
     61A  THR*     3.3    35.8    +      -       -      +
     62A  THR*     1.3    88.2    +      -       -      +
     64A  ASN*     1.3    64.2    +      -       -      +
     65A  VAL*     3.1     6.7    +      -       +      +
    120A  PRO*     3.2     2.2    -      -       -      +
    121A  ALA      2.9    30.3    +      -       -      +
    147A  GLN*     2.9    24.6    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ASN 64 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     62A  THR*     5.7     0.5    -      -       -      +
     63A  GLN*     1.3    72.3    -      -       -      +
     65A  VAL*     1.3    61.5    +      -       -      +
    118A  THR*     3.7    21.2    -      -       +      +
    119A  ARG      4.3     2.7    -      -       -      -
    120A  PRO*     3.6    15.3    -      -       -      +
    147A  GLN*     3.2     9.5    +      -       +      +
    148A  ALA      3.0    33.4    +      -       -      +
    149A  SER      4.9     1.0    +      -       -      -
    150A  SER*     3.9    24.8    -      -       -      +
    151A  TYR*     3.5    22.5    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with VAL 65 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      9A  ILE*     4.6     0.7    -      -       +      -
     59A  MET*     3.7    27.4    -      -       +      -
     63A  GLN*     3.1    18.4    +      -       +      +
     64A  ASN*     1.3    70.7    -      -       -      +
     66A  ASN*     1.3    61.0    +      -       -      +
     67A  GLY      3.8     1.6    -      -       -      +
     89A  LEU*     3.9    12.3    -      -       +      -
    116A  PHE*     3.7    30.1    -      -       +      -
    118A  THR*     3.4     1.0    -      -       -      -
    119A  ARG      2.9    37.6    +      -       -      +
    121A  ALA*     4.2     8.1    -      -       +      +
    124A  VAL*     4.6     2.7    -      -       +      -
    145A  VAL*     3.6    27.1    -      -       +      -
    146A  PHE      3.3     5.6    -      -       -      +
    147A  GLN*     4.5     0.2    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with ASN 66 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      5A  ILE*     3.3    28.0    +      -       +      +
      6A  GLY*     3.4    27.7    +      -       -      +
     64A  ASN      4.5     0.2    -      -       -      +
     65A  VAL*     1.3    75.4    -      -       -      +
     67A  GLY*     1.3    58.1    +      -       -      +
    115A  ASN*     3.9     0.2    -      -       -      -
    116A  PHE*     3.1    38.8    +      -       -      +
    118A  THR*     3.6    16.3    +      -       -      +
    146A  PHE*     2.9    26.6    +      -       -      +
    147A  GLN      3.3     4.3    +      -       -      -
    148A  ALA*     3.7    23.2    -      -       -      +
    490A  SER*     5.7     2.0    -      -       -      +
----------------------------------------------------------
 Back to top of page

Residues in contact with GLY 67 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     65A  VAL*     3.9     1.2    -      -       -      +
     66A  ASN*     1.3    81.1    -      -       -      +
     68A  LEU*     1.3    60.5    +      -       -      +
    114A  SER      3.0    14.8    -      -       -      -
    115A  ASN*     4.5     3.6    -      -       -      -
    116A  PHE*     3.4    16.4    -      -       -      -
    145A  VAL*     3.5    10.0    -      -       -      +
    146A  PHE*     2.8    35.0    +      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with LEU 68 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
      4A  PRO*     5.8     0.2    -      -       -      +
     67A  GLY*     1.3    75.0    -      -       -      +
     69A  SER*     1.3    72.0    +      -       -      +
     70A  MET*     4.9     0.2    -      -       +      -
     87A  VAL*     3.7    31.4    -      -       +      -
    105A  TRP*     4.1    20.0    -      -       +      -
    113A  TYR*     3.6     5.4    -      -       -      +
    114A  SER*     3.0    53.0    +      -       -      +
    115A  ASN*     5.2     1.2    +      -       -      +
    116A  PHE*     5.0     0.9    -      -       +      -
    124A  VAL*     4.2    15.7    -      -       +      -
    126A  LEU*     4.4    20.4    -      -       +      -
    143A  ILE*     4.7    10.1    -      -       +      -
    144A  ASN      3.1    15.5    -      -       -      +
    145A  VAL*     4.4     5.6    -      -       +      -
    146A  PHE*     3.8     7.7    -      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with SER 69 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     68A  LEU*     1.3    77.4    -      -       -      +
     70A  MET*     1.3    61.4    +      -       -      +
     71A  LEU      4.2     0.7    -      -       -      -
    111A  THR*     4.2     8.3    -      -       -      +
    112A  LYS      3.3    10.8    -      -       -      -
    113A  TYR*     3.9    17.0    -      -       -      -
    142A  GLU      4.5     0.8    +      -       -      -
    143A  ILE*     3.5    10.7    -      -       -      +
    144A  ASN*     2.9    42.3    +      -       -      +
    146A  PHE*     3.3    24.0    -      -       -      -
----------------------------------------------------------
 Back to top of page

Residues in contact with MET 70 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     68A  LEU*     4.9     0.7    -      -       +      -
     69A  SER*     1.3    73.7    -      -       -      +
     71A  LEU*     1.3    63.2    +      -       -      +
     72A  PRO*     3.5    32.3    -      -       +      +
     82A  ILE*     4.3    16.6    -      -       +      +
    105A  TRP*     3.9    38.6    -      -       +      -
    111A  THR*     4.3     2.0    -      -       -      -
    112A  LYS*     2.8    57.6    +      -       +      +
    126A  LEU*     4.4     6.3    -      -       +      -
    139A  SER      4.5     2.9    -      -       -      +
    140A  ILE*     4.0    35.9    -      -       +      -
    142A  GLU      3.6     2.2    -      -       -      -
    143A  ILE*     4.8     0.9    -      -       +      +
----------------------------------------------------------
 Back to top of page

Residues in contact with LEU 71 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     35A  LYS*     3.8    43.1    -      -       +      +
     69A  SER      4.2     0.4    -      -       -      -
     70A  MET*     1.3    73.9    -      -       -      +
     72A  PRO*     1.3    61.6    -      -       +      +
     74A  GLN*     3.6    26.7    -      -       +      +
    109A  SER      4.5     0.7    -      -       -      +
    111A  THR*     3.3    31.6    -      -       +      +
    140A  ILE      3.7     1.0    -      -       -      -
    141A  ALA*     2.7    37.8    +      -       +      +
    142A  GLU*     2.8    36.7    +      -       +      +
----------------------------------------------------------
 Back to top of page


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