Contacts of the strand formed by residues 211 - 223 (chain C) in PDB entry 2MPR


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 ASP 211 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    193C  TYR*     2.6    31.4    +      -       +      +
    194C  GLY      3.1    15.7    -      -       -      +
    195C  ARG*     3.6     5.8    -      -       +      -
    209C  SER      2.8    13.6    +      -       -      +
    210C  LYS*     1.3    84.2    -      -       +      +
    212C  GLY*     1.3    60.8    +      -       -      +
    213C  TRP*     6.1     0.4    -      -       -      -
    237C  ASP*     3.2    13.7    -      -       -      +
    238C  ALA*     2.9    25.5    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLY 212 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    193C  TYR*     3.3     9.0    -      -       -      -
    194C  GLY      3.0    27.7    +      -       -      -
    211C  ASP*     1.3    82.1    -      -       -      +
    213C  TRP*     1.3    67.4    +      -       -      -
    236C  THR*     3.3    21.8    -      -       -      -
    238C  ALA*     3.8     1.0    -      -       -      +
    239C  MET*     3.5    10.8    -      -       -      -
----------------------------------------------------------
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Residues in contact with TRP 213 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    191C  VAL*     3.7    32.8    -      -       +      -
    192C  ASP      3.2    12.8    -      -       -      -
    193C  TYR*     3.4    38.7    -      +       +      -
    211C  ASP*     6.2     0.2    -      -       -      -
    212C  GLY*     1.3    78.8    -      -       -      -
    214C  MET*     1.3    62.8    +      -       -      +
    215C  PHE*     3.9    29.6    -      +       +      -
    234C  TYR      4.5     0.4    -      -       -      -
    235C  ALA*     3.3     2.3    -      -       -      -
    236C  THR*     2.8    45.0    +      -       +      +
    239C  MET*     3.5     4.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with MET 214 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    120C  TRP*     5.2     1.3    -      -       -      -
    190C  GLY      4.0     0.2    -      -       -      +
    191C  VAL*     3.5     3.6    -      -       -      +
    192C  ASP*     2.8    41.4    +      -       +      +
    213C  TRP*     1.3    76.1    -      -       -      +
    215C  PHE*     1.3    74.7    +      -       -      +
    216C  THR*     4.3     4.5    -      -       -      +
    233C  GLN*     4.4    16.2    -      -       +      +
    234C  TYR      3.3    11.4    -      -       -      +
    235C  ALA*     3.8     9.6    -      -       +      -
    239C  MET*     4.0    17.5    -      -       +      +
    243C  GLY*     3.4    32.3    -      -       -      +
    244C  LYS*     3.9     3.8    -      -       -      +
    245C  GLY*     3.6    25.1    -      -       -      +
    279C  MET*     3.5    24.5    -      -       +      -
    281C  ARG*     4.4     4.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 215 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    190C  GLY      3.5     3.4    -      -       -      +
    191C  VAL*     4.0    32.3    -      -       +      -
    213C  TRP*     3.9    35.7    -      +       +      -
    214C  MET*     1.3    79.3    -      -       -      +
    216C  THR*     1.3    63.5    +      -       -      +
    232C  VAL      3.8     0.7    -      -       -      +
    233C  GLN*     3.1     8.0    -      -       -      +
    234C  TYR*     2.9    64.8    +      +       +      +
    236C  THR*     5.9     1.1    -      -       -      -
----------------------------------------------------------
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Residues in contact with THR 216 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    119C  TYR*     5.7     0.9    -      -       +      -
    120C  TRP*     3.6    50.2    +      -       +      -
    188C  GLU      4.4     0.7    -      -       -      +
    189C  LEU*     3.4     5.4    -      -       -      +
    190C  GLY      2.9    31.1    +      -       -      +
    192C  ASP*     5.2     0.7    +      -       -      -
    214C  MET*     4.5     5.7    -      -       -      +
    215C  PHE*     1.3    75.4    -      -       -      +
    217C  ALA*     1.3    71.7    +      -       -      +
    218C  GLU*     4.6     3.6    -      -       +      +
    231C  VAL*     4.4     5.6    -      -       +      -
    232C  VAL      3.6     3.1    -      -       -      -
    233C  GLN*     2.8    36.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 217 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    187C  LEU*     4.6     7.2    -      -       +      -
    188C  GLU      3.4     6.7    -      -       -      -
    189C  LEU*     4.0    15.9    -      -       +      -
    216C  THR*     1.3    76.4    -      -       -      +
    218C  GLU*     1.3    62.1    +      -       -      +
    219C  HIS      4.3     0.2    -      -       -      -
    230C  PHE      3.7     1.3    -      -       -      +
    231C  VAL*     3.4     4.5    -      -       -      +
    232C  VAL*     3.0    41.9    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 218 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    110C  HIS*     2.9    33.2    +      -       +      +
    119C  TYR*     2.6    35.5    +      -       -      -
    120C  TRP*     5.4     0.2    -      -       -      -
    186C  VAL      3.9     0.7    -      -       -      +
    187C  LEU*     3.5     4.9    -      -       -      +
    188C  GLU*     2.9    46.0    +      -       +      +
    216C  THR*     4.8     7.4    -      -       +      -
    217C  ALA*     1.3    74.1    -      -       -      +
    219C  HIS*     1.3    64.7    +      -       -      +
    220C  THR*     4.1     9.3    +      -       -      +
    229C  LYS*     3.3    28.2    +      -       +      -
    230C  PHE      3.4     3.4    -      -       -      +
    231C  VAL*     3.7    14.8    -      -       +      +
----------------------------------------------------------
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Residues in contact with HIS 219 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    181C  THR*     3.3    16.2    +      -       +      -
    182C  ASN*     3.0    22.6    +      -       -      -
    185C  GLY*     3.5     5.3    -      -       -      -
    186C  VAL      3.1    20.6    -      -       -      -
    187C  LEU*     4.2    13.2    -      -       +      +
    217C  ALA      4.3     0.2    -      -       -      -
    218C  GLU*     1.3    74.1    -      -       -      +
    220C  THR*     1.3    68.6    +      -       -      +
    221C  GLN*     3.3    31.1    +      -       +      +
    228C  ASN*     3.5     3.3    +      -       -      +
    229C  LYS*     3.2     5.9    -      -       -      -
    230C  PHE*     2.9    48.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with THR 220 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    184C  ASP      3.6     1.7    -      -       -      +
    185C  GLY*     3.3     3.5    -      -       -      -
    186C  VAL*     2.8    45.0    +      -       -      +
    218C  GLU*     4.2     6.6    +      -       -      +
    219C  HIS*     1.3    75.0    -      -       -      +
    221C  GLN*     1.3    63.9    +      -       -      +
    222C  SER*     4.1     4.4    +      -       -      +
    227C  TYR*     4.1    18.6    -      -       +      -
    228C  ASN      3.6     1.6    -      -       -      -
    229C  LYS*     3.0    40.2    +      -       +      +
----------------------------------------------------------
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Residues in contact with GLN 221 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    182C  ASN*     2.8    25.5    +      -       -      +
    183C  PRO      3.1    16.8    +      -       -      -
    184C  ASP*     2.9    26.3    +      -       -      +
    185C  GLY*     3.2     8.7    -      -       -      -
    219C  HIS*     3.3    14.6    +      -       +      +
    220C  THR*     1.3    73.0    -      -       -      +
    222C  SER*     1.3    68.4    +      -       -      +
    223C  MET*     3.7    14.2    +      -       +      +
    227C  TYR*     3.2     6.4    -      -       -      -
    228C  ASN*     2.9    41.4    +      -       +      +
----------------------------------------------------------
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Residues in contact with SER 222 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    184C  ASP*     2.9    34.0    +      -       -      +
    220C  THR*     4.1     5.4    +      -       -      +
    221C  GLN*     1.3    82.7    +      -       -      +
    223C  MET*     1.3    64.2    +      -       -      +
    226C  GLY      3.6    10.9    +      -       -      -
    227C  TYR*     4.5     1.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with MET 223 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    221C  GLN*     3.9    20.4    -      -       +      +
    222C  SER*     1.3    77.6    -      -       -      +
    224C  LEU*     1.3    86.4    +      -       +      +
    225C  LYS      3.0     3.4    -      -       -      -
    226C  GLY*     2.7    36.9    +      -       -      +
    227C  TYR*     4.5     2.7    -      -       -      -
    228C  ASN*     4.3    20.6    -      -       +      -
    288C  ILE*     4.0    21.3    -      -       +      +
    298C  TYR*     4.6     4.7    -      -       -      +
----------------------------------------------------------
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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