Contacts of the strand formed by residues 160 - 166 (chain 1) in PDB entry 1MVW


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 THR 160 (chain 1).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    1531  LEU*     4.4     6.1    -      -       +      -
    1541  ASP      3.2     9.4    -      -       -      +
    1551  SER*     2.6    26.0    +      -       -      +
    1591  VAL*     1.4    70.9    -      -       -      +
    1611  HIS*     1.3    76.5    +      -       -      +
    1621  ASN*     5.0     2.7    -      -       -      +
    1771  ARG*     3.3     6.8    -      -       -      +
    1781  LEU*     2.9    46.3    +      -       +      -
    1801  LEU      3.1    16.3    +      -       -      -
    2611  LEU*     5.1     0.2    -      -       -      +
    2741  ILE*     3.6    31.0    -      -       +      +
    2771  THR*     6.1     0.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with HIS 161 (chain 1). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     731  HIS      5.2     0.9    -      -       -      -
    1081  ALA*     4.9     7.2    -      -       +      -
    1091  PRO*     3.6    41.9    -      -       +      +
    1101  LEU*     5.2     3.0    +      -       -      +
    1521  VAL      4.1     0.2    -      -       -      -
    1531  LEU*     3.4     4.9    -      -       -      -
    1541  ASP*     2.7    40.5    +      -       +      +
    1591  VAL*     4.0    31.3    -      -       +      +
    1601  THR*     1.3    80.4    +      -       -      +
    1621  ASN*     1.3    67.2    +      -       -      +
    1631  VAL*     4.2    11.0    -      -       +      -
    1751  ILE*     4.0     8.4    -      -       +      +
    1761  MET      3.0    17.0    -      -       -      -
    1771  ARG*     3.7    28.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with ASN 162 (chain 1). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    1511  ILE*     4.5     5.4    -      -       +      +
    1521  VAL      3.2     7.4    +      -       -      +
    1531  LEU*     3.6    21.0    -      -       -      +
    1601  THR*     5.0     2.1    -      -       -      +
    1611  HIS*     1.3    75.6    +      -       -      +
    1631  VAL*     1.3    63.4    +      -       -      +
    1641  PRO*     3.5     2.4    -      -       -      +
    1751  ILE*     3.2    24.4    -      -       -      +
    1761  MET      2.9    12.9    +      -       -      +
    1781  LEU*     5.8     0.3    +      -       -      +
    2771  THR*     2.9    31.9    -      -       -      +
    2781  THR*     3.4    34.4    +      -       -      +
    2811  SER*     3.6    20.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 163 (chain 1). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    1091  PRO*     3.5    35.2    -      -       +      -
    1361  ILE*     5.1     2.0    -      -       +      -
    1381  ALA*     3.4    20.4    -      -       +      -
    1391  VAL*     5.0     0.9    -      -       +      -
    1511  ILE*     4.2     1.1    -      -       -      +
    1521  VAL      2.9    28.4    +      -       -      +
    1541  ASP*     5.8     0.4    -      -       +      -
    1611  HIS*     4.2     9.4    -      -       +      -
    1621  ASN*     1.3    77.6    -      -       -      +
    1641  PRO*     1.3    62.6    -      -       -      +
    1651  ILE*     3.5    17.2    +      -       +      +
    1701  ALA*     3.6    31.4    -      -       +      -
    1751  ILE*     3.9    16.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with PRO 164 (chain 1). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    1501  GLY      3.7     6.5    -      -       -      +
    1511  ILE*     3.9    16.6    -      -       +      -
    1621  ASN      3.5     7.2    -      -       -      +
    1631  VAL*     1.3    82.2    -      -       -      +
    1651  ILE*     1.3    60.3    +      -       -      +
    1701  ALA*     3.6     0.3    -      -       -      -
    1711  LEU*     2.8    36.4    +      -       +      +
    1741  ALA*     3.7    15.5    -      -       +      -
    1751  ILE*     4.0    17.9    -      -       +      +
    2811  SER*     3.4    21.3    -      -       -      +
    2851  CYS*     3.8    21.3    -      -       -      -
    2931  LEU*     4.4     9.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 165 (chain 1). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    1381  ALA*     3.7     9.2    -      -       +      +
    1391  VAL*     3.5    40.8    -      -       +      +
    1421  LEU*     3.9    19.3    -      -       +      -
    1481  THR      3.4    17.3    -      -       -      +
    1491  THR*     3.1    23.7    -      -       -      +
    1501  GLY      2.9    12.7    +      -       -      +
    1521  VAL*     4.5     2.7    -      -       +      -
    1631  VAL*     3.6    20.6    -      -       +      +
    1641  PRO*     1.3    75.1    -      -       -      +
    1661  TYR*     1.3    63.1    +      -       -      +
    1681  GLY*     3.6    25.6    -      -       -      +
    1691  TYR      3.7     2.9    -      -       -      +
    1701  ALA*     3.6    15.7    -      -       +      -
    1711  LEU*     4.7     1.1    -      -       -      -
    2931  LEU*     4.3     2.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with TYR 166 (chain 1). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    1491  THR*     3.6    19.3    -      -       +      -
    1651  ILE*     1.3    73.2    -      -       -      +
    1671  GLU*     1.3    89.2    +      -       +      +
    1681  GLY      2.9     4.6    +      -       -      -
    1691  TYR*     3.1    26.5    +      -       +      +
    1711  LEU*     4.3    21.0    -      -       +      +
    2891  ILE*     3.7    26.9    -      -       +      -
    2921  ASP*     4.0    17.0    +      -       -      -
     403  HIS*     4.4    26.0    -      +       +      +
     443  MET*     6.0     0.2    -      -       -      -
     643  ILE*     2.2    67.0    -      -       +      +
----------------------------------------------------------
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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