Contacts of the strand formed by residues 749 - 762 (chain C) in PDB entry 5UHG


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 SER 749 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    616C  VAL*     3.7    10.8    -      -       -      -
    617C  PRO      3.5    19.3    -      -       -      -
    618C  LEU*     4.3     3.6    -      -       -      -
    619C  VAL*     4.3     2.5    -      -       -      +
    748C  THR*     1.3    76.7    -      -       -      +
    750C  ILE*     1.3    64.0    +      -       -      +
    751C  HIS*     2.7    25.1    +      -       -      -
    875C  GLN      3.5     0.2    -      -       -      +
    876C  LYS*     3.5     3.5    -      -       -      -
    877C  ARG      2.8    33.3    +      -       -      -
   1032C  LYS*     2.6    28.0    +      -       -      -
----------------------------------------------------------
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Residues in contact with ILE 750 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     62A  GLU*     5.9     0.2    -      -       -      +
     63A  PHE*     3.8    37.7    -      -       +      -
     74A  THR*     4.8    10.8    -      -       +      +
    616C  VAL*     5.7     0.3    -      -       -      +
    617C  PRO*     4.4     5.3    +      -       -      +
    618C  LEU      5.6     0.2    -      -       -      -
    619C  VAL*     4.4    23.5    -      -       +      +
    675C  PHE*     4.1    16.4    -      -       +      -
    682C  THR*     4.3     0.3    -      -       -      -
    683C  CYS*     3.3    46.1    +      -       +      +
    749C  SER*     1.3    78.4    -      -       -      +
    751C  HIS*     1.3    73.5    +      -       -      +
    752C  ILE*     4.7     3.1    -      -       +      -
    874C  ALA*     4.4    13.0    -      -       +      -
    875C  GLN      3.2     9.6    -      -       -      +
    876C  LYS*     4.9     6.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with HIS 751 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    616C  VAL*     3.7    21.8    -      -       +      -
    681C  GLY      3.3    14.1    +      -       -      +
    682C  THR*     4.6     4.8    -      -       +      +
    749C  SER*     2.7    29.1    +      -       -      -
    750C  ILE*     1.3    80.6    +      -       -      +
    752C  ILE*     1.3    64.4    +      -       -      +
    753C  GLU*     6.3     0.9    -      -       +      -
    874C  ALA*     3.2     2.0    -      -       -      -
    875C  GLN*     2.7    46.1    +      -       +      +
    877C  ARG*     3.4    42.2    +      -       +      +
   1034C  HIS*     4.2    17.8    +      -       -      -
   1036C  LEU*     3.8    21.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with ILE 752 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    675C  PHE*     3.8    18.2    -      -       +      +
    676C  ALA      3.5    33.9    -      -       -      +
    677C  ARG*     3.2    29.7    +      -       +      +
    681C  GLY*     3.1    22.3    +      -       -      +
    683C  CYS*     4.9    10.5    -      -       +      -
    750C  ILE*     4.7     6.5    -      -       +      -
    751C  HIS*     1.3    79.5    -      -       -      +
    753C  GLU*     1.3    77.3    +      -       -      +
    848C  ILE*     4.0    22.9    -      -       +      -
    872C  TYR*     4.2    12.6    -      -       +      -
    873C  VAL      3.5     7.9    -      -       -      +
    874C  ALA*     4.3    10.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLU 753 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    677C  ARG*     3.3    23.1    +      -       -      +
    681C  GLY*     5.7     1.8    -      -       -      -
    751C  HIS*     5.8     1.3    -      -       +      -
    752C  ILE*     1.3    82.6    -      -       -      +
    754C  GLU*     1.3    62.3    +      -       -      +
    755C  HIS*     3.5    24.4    -      -       +      +
    843C  GLU*     3.7    30.9    -      -       -      +
    871C  VAL      4.0     0.5    -      -       -      +
    872C  TYR*     3.3     7.6    -      -       -      +
    873C  VAL*     3.0    31.6    +      -       +      +
    875C  GLN*     4.5     9.5    +      -       -      +
    877C  ARG*     5.8     1.4    +      -       -      -
   1039C  ASP*     5.1     6.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLU 754 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    677C  ARG*     3.3    28.5    +      -       -      +
    753C  GLU*     1.3    76.4    +      -       -      +
    755C  HIS*     1.3    71.7    +      -       -      +
    756C  GLU*     4.1    16.0    +      -       +      +
    870C  ARG*     4.3    20.6    +      -       +      -
    871C  VAL      4.2     0.2    -      -       -      -
    872C  TYR*     3.2    43.7    +      -       +      -
----------------------------------------------------------
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Residues in contact with HIS 755 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    753C  GLU*     3.5    28.9    -      -       +      +
    754C  GLU*     1.3    77.7    +      -       -      +
    756C  GLU*     1.3    60.5    +      -       -      +
    802C  LEU*     3.9    28.7    -      -       +      -
    837C  LEU*     4.2    13.6    -      -       +      +
    839C  VAL*     5.5     2.0    -      -       +      +
    840C  PRO*     3.9    33.8    -      -       +      +
    843C  GLU*     4.5    16.3    +      -       -      +
    869C  VAL      3.9     0.2    -      -       -      +
    870C  ARG*     3.2     7.1    -      -       -      +
    871C  VAL*     2.9    45.6    +      -       -      +
    873C  VAL*     4.1    18.2    -      -       +      +
----------------------------------------------------------
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Residues in contact with GLU 756 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    754C  GLU*     4.1    14.9    +      -       -      +
    755C  HIS*     1.3    74.4    -      -       -      +
    757C  ILE*     1.3    65.9    +      -       -      +
    837C  LEU*     3.4    17.1    -      -       -      +
    868C  LEU*     4.0    16.2    -      -       +      +
    869C  VAL      3.5     6.5    -      -       -      +
    870C  ARG*     2.5    55.6    +      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 757 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    756C  GLU*     1.3    77.6    -      -       -      +
    758C  ASP*     1.3    73.9    +      -       -      +
    769C  ILE*     5.2     3.1    -      -       +      -
    803C  VAL*     3.6    37.2    -      -       +      -
    805C  LYS*     3.9    20.6    -      -       +      +
    835C  THR      3.7    22.7    -      -       -      +
    836C  SER      4.0     1.1    -      -       -      +
    837C  LEU*     3.6    33.7    -      -       +      +
    867C  GLU      4.3     0.2    -      -       -      +
    868C  LEU*     3.3     4.9    -      -       -      +
    869C  VAL*     3.0    33.8    +      -       +      +
----------------------------------------------------------
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Residues in contact with ASP 758 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    757C  ILE*     1.3    80.9    -      -       -      +
    759C  ALA*     1.3    60.3    +      -       -      +
    760C  ARG*     3.1    44.4    +      -       -      +
    767C  GLU*     3.1    13.4    -      -       -      +
    769C  ILE*     5.0     2.5    -      -       -      -
    805C  LYS*     3.2    16.1    +      -       -      +
    865C  VAL*     3.8    22.8    -      -       +      +
    867C  GLU      3.4     5.6    -      -       -      -
    868C  LEU*     4.0    12.8    -      -       +      -
    331D  ASP*     4.2     2.9    -      -       -      +
    332D  GLY*     5.9     0.2    -      -       -      -
----------------------------------------------------------
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Residues in contact with ALA 759 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    758C  ASP*     1.3    74.1    -      -       -      +
    760C  ARG*     1.3    60.2    +      -       -      +
    767C  GLU*     3.2    30.1    -      -       +      +
    768C  GLU*     4.9     0.4    -      -       -      -
    769C  ILE*     4.0    19.1    -      -       +      +
    805C  LYS*     4.8     0.2    -      -       +      -
    865C  VAL*     3.5     1.3    -      -       -      +
    866C  ASN*     2.6    38.6    +      -       +      -
    867C  GLU*     2.7    27.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with ARG 760 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    758C  ASP*     3.1    36.4    +      -       -      +
    759C  ALA*     1.3    76.4    -      -       -      +
    761C  ASP*     1.3    66.8    +      -       -      +
    766C  ALA*     3.5     0.9    -      -       -      -
    767C  GLU*     2.7    72.7    +      -       -      +
    805C  LYS*     4.4     7.1    -      -       -      +
    864C  GLY      3.1    12.8    -      -       -      +
    865C  VAL*     4.6     9.2    -      -       +      -
    866C  ASN*     3.8     2.7    +      -       -      -
    331D  ASP*     2.7    55.9    +      -       -      +
    332D  GLY      5.7     0.4    -      -       -      -
    333D  GLY*     5.4     3.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASP 761 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    760C  ARG*     1.3    78.3    -      -       -      +
    762C  THR*     1.3    63.5    +      -       -      +
    763C  LYS*     5.4     3.5    +      -       -      -
    765C  GLY      3.9     6.1    -      -       -      +
    766C  ALA*     3.4    10.7    -      -       -      +
    855C  ARG*     5.5     1.4    +      -       -      -
    864C  GLY*     3.0    32.3    +      -       -      +
    866C  ASN*     3.4    24.8    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 762 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    760C  ARG      3.8     2.1    +      -       -      -
    761C  ASP*     1.3    77.1    -      -       -      +
    763C  LYS*     1.3    76.2    +      -       -      +
    764C  LEU*     3.4    12.2    +      -       +      +
    765C  GLY      2.8    43.8    +      -       -      +
    766C  ALA*     4.0     3.1    -      -       -      +
    767C  GLU*     4.9     7.6    -      -       +      +
    807C  THR*     5.8     1.8    -      -       -      -
    808C  PRO*     3.7    22.4    +      -       +      +
----------------------------------------------------------
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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