Contacts of the helix formed by residues 312 - 327 (chain B) in PDB entry 1UN0


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 312 (chain B).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    128A  GLN*     4.8     7.6    -      -       -      +
    271B  THR*     5.0     7.5    -      -       -      +
    310B  HIS*     3.0    21.8    +      -       -      -
    311B  GLU*     1.3    81.7    -      -       -      +
    313B  THR*     1.3    57.3    +      -       -      +
    314B  LEU*     3.2    30.8    +      -       -      +
    315B  VAL*     3.1    22.5    +      -       -      +
    316B  GLN*     3.1    16.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with THR 313 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    128A  GLN*     3.5    29.1    +      -       +      +
    311B  GLU      3.8     3.0    +      -       -      +
    312B  SER*     1.3    69.7    +      -       -      +
    314B  LEU*     1.3    60.7    +      -       -      +
    315B  VAL      3.0     5.2    -      -       -      -
    316B  GLN*     3.7    24.5    -      -       -      +
    317B  THR*     3.0    33.2    +      -       -      -
    352B  SER*     5.5     2.0    -      -       -      +
    353B  PRO*     6.2     2.5    -      -       +      -
    354B  LYS*     4.0    30.9    -      -       +      -
    357B  ILE*     4.8     7.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 314 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    124A  ASP*     3.6    31.6    -      -       +      +
    125A  VAL*     3.6    42.4    -      -       +      +
    128A  GLN*     4.3    17.9    -      -       +      +
    271B  THR*     5.6     1.1    -      -       +      -
    275B  VAL*     3.5    29.9    -      -       +      +
    279B  TRP*     4.6     0.7    +      -       -      -
    312B  SER*     3.1    15.0    -      -       -      +
    313B  THR*     1.3    80.1    -      -       -      +
    315B  VAL*     1.3    57.7    +      -       -      +
    317B  THR*     5.3     0.7    -      -       -      -
    318B  PRO*     3.4    20.3    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 315 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    271B  THR*     4.8     3.1    -      -       +      -
    274B  LEU*     4.1    17.7    -      -       +      -
    275B  VAL*     4.0    18.6    -      -       +      +
    278B  CYS*     4.3     8.7    -      -       -      -
    307B  LEU*     4.1    24.0    -      -       +      +
    310B  HIS*     3.9    46.9    -      -       +      +
    312B  SER*     3.1    12.1    +      -       -      +
    313B  THR      3.0     0.4    -      -       -      -
    314B  LEU*     1.3    78.9    -      -       -      +
    316B  GLN*     1.3    69.3    +      -       -      +
    317B  THR      3.2     1.7    +      -       -      -
    318B  PRO*     3.3     6.2    -      -       -      +
    319B  ALA*     3.1    21.7    +      -       -      +
----------------------------------------------------------
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Residues in contact with GLN 316 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    307B  LEU      4.3     4.7    -      -       -      +
    308B  LEU*     3.5    25.2    -      -       -      +
    309B  SER*     4.8     0.6    -      -       -      +
    310B  HIS      2.5    27.8    +      -       -      +
    311B  GLU      3.8    12.5    +      -       -      -
    312B  SER      3.1    11.5    +      -       -      +
    313B  THR*     3.4    20.1    +      -       -      +
    315B  VAL*     1.3    76.4    -      -       -      +
    317B  THR*     1.3    59.2    +      -       -      +
    319B  ALA*     3.6     3.8    -      -       -      +
    320B  LEU*     2.7    35.8    +      -       -      +
    348B  LEU*     5.9     2.3    -      -       -      +
    349B  LEU*     3.6    20.2    -      -       +      +
    352B  SER*     4.9     5.0    +      -       -      -
    357B  ILE*     4.2    15.2    -      -       +      +
----------------------------------------------------------
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Residues in contact with THR 317 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    279B  TRP*     4.1     7.2    -      -       +      -
    313B  THR*     3.0    17.1    +      -       -      -
    314B  LEU*     5.3     0.4    -      -       -      -
    315B  VAL      3.2     0.2    +      -       -      -
    316B  GLN*     1.3    76.0    -      -       -      +
    318B  PRO*     1.3    66.4    -      -       +      +
    320B  LEU*     3.6     1.9    +      -       -      +
    321B  ARG      3.1     5.4    +      -       -      -
    357B  ILE*     3.2    23.6    -      -       -      +
     45D  LYS*     1.2    89.6    +      -       +      +
     50D  PHE*     3.6    29.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with PRO 318 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    275B  VAL      4.3     0.7    -      -       -      +
    278B  CYS*     3.8    15.6    -      -       +      +
    279B  TRP*     3.7    53.2    -      -       +      +
    282B  SER*     3.6     7.3    -      -       -      +
    314B  LEU*     3.4    23.1    -      -       -      +
    315B  VAL      3.3     7.0    -      -       -      +
    317B  THR*     1.3    96.8    -      -       +      +
    319B  ALA*     1.3    60.0    +      -       -      +
    321B  ARG*     3.2     5.8    +      -       +      +
    322B  ALA*     3.0    28.1    +      -       -      +
     45D  LYS*     3.4     3.6    -      -       -      +
----------------------------------------------------------
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Residues in contact with ALA 319 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    278B  CYS*     4.3    15.6    -      -       -      +
    304B  LEU*     4.3    17.5    -      -       +      +
    307B  LEU*     4.3    17.0    -      -       +      +
    308B  LEU*     3.8    13.9    -      -       +      -
    315B  VAL      3.1    21.1    +      -       -      +
    316B  GLN*     3.6     3.4    -      -       -      +
    318B  PRO*     1.3    75.1    -      -       -      +
    320B  LEU*     1.3    66.8    +      -       -      +
    322B  ALA*     3.2     4.5    +      -       -      +
    323B  VAL*     3.1    26.2    +      -       -      +
----------------------------------------------------------
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Residues in contact with LEU 320 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    308B  LEU*     3.5    15.6    -      -       +      +
    316B  GLN      2.7    22.6    +      -       -      +
    317B  THR      3.8     4.3    -      -       -      +
    319B  ALA*     1.3    72.0    -      -       -      +
    321B  ARG*     1.3    65.0    +      -       -      +
    323B  VAL*     3.2     3.5    +      -       +      +
    324B  GLY*     2.9    20.4    +      -       -      -
    346B  LEU*     3.9    18.6    -      -       +      -
    349B  LEU*     3.8    23.3    -      -       +      -
    357B  ILE*     3.7    34.3    -      -       +      +
    360B  GLU*     3.4    34.5    -      -       +      +
    361B  ALA*     3.8     2.2    -      -       -      +
    363B  TRP*     5.2     0.6    -      -       +      -
    364B  THR*     3.9    13.8    +      -       +      +
     45D  LYS*     5.3     0.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with ARG 321 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    282B  SER*     4.2     9.6    -      -       -      +
    286B  ASP*     5.1     1.8    +      -       -      -
    317B  THR      3.1     2.8    +      -       -      -
    318B  PRO*     3.4     9.2    -      -       +      +
    319B  ALA      3.1     0.4    -      -       -      -
    320B  LEU*     1.3    81.4    -      -       -      +
    322B  ALA*     1.3    56.8    +      -       -      +
    324B  GLY*     3.2     1.7    +      -       -      -
    325B  ASN*     2.9    46.1    +      -       -      +
    360B  GLU*     2.7    40.7    +      -       -      -
    363B  TRP*     3.9    10.5    -      -       -      -
     40D  LYS*     3.0    27.4    -      -       -      +
     42D  ALA      2.6    31.5    +      -       -      -
     43D  MET*     2.8    17.4    +      -       -      +
     45D  LYS*     3.2    44.5    -      -       +      +
----------------------------------------------------------
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Residues in contact with ALA 322 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    278B  CYS      5.0     0.2    -      -       -      +
    281B  ILE*     4.1     6.1    -      -       +      -
    282B  SER*     3.9    21.2    -      -       -      +
    285B  SER*     3.7    15.7    +      -       -      +
    304B  LEU*     3.8    24.2    -      -       +      -
    318B  PRO      3.0    12.7    +      -       -      +
    319B  ALA*     3.5     9.4    -      -       -      +
    321B  ARG*     1.3    74.0    -      -       -      +
    323B  VAL*     1.3    65.7    +      -       -      +
    325B  ASN*     3.0    12.1    +      -       -      +
    326B  ILE*     3.0    19.6    +      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 323 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    301B  PRO*     5.6     1.1    -      -       +      +
    304B  LEU*     3.9    25.8    -      -       +      -
    305B  VAL*     4.8     6.5    -      -       +      +
    308B  LEU*     4.3    18.4    -      -       +      -
    319B  ALA      3.1    14.3    +      -       -      +
    320B  LEU*     3.2    10.5    +      -       +      +
    322B  ALA*     1.3    76.3    -      -       -      +
    324B  GLY*     1.3    62.5    +      -       -      +
    326B  ILE*     3.2    12.7    +      -       +      +
    327B  VAL*     3.1    22.6    +      -       +      +
    337B  VAL*     3.9    11.8    -      -       +      +
    342B  VAL*     3.5    28.9    -      -       +      -
    364B  THR*     4.1    13.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLY 324 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    320B  LEU      2.9    12.1    +      -       -      -
    321B  ARG      3.6     3.4    -      -       -      -
    323B  VAL*     1.3    77.8    -      -       -      +
    325B  ASN*     1.3    59.7    +      -       -      +
    327B  VAL*     3.3    13.3    -      -       -      +
    328B  THR*     3.3    22.2    +      -       -      +
    363B  TRP*     3.6    18.8    -      -       -      -
    364B  THR*     3.6    21.5    +      -       -      -
    367B  ASN*     4.8     0.3    +      -       -      -
----------------------------------------------------------
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Residues in contact with ASN 325 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    282B  SER      2.9    29.1    +      -       -      -
    285B  SER*     3.3    26.8    +      -       -      +
    286B  ASP*     3.4    21.4    +      -       -      +
    292B  ILE*     3.5     7.8    -      -       -      +
    321B  ARG*     2.9    31.1    +      -       -      +
    322B  ALA      3.0     2.9    +      -       -      +
    324B  GLY*     1.3    76.3    -      -       -      +
    326B  ILE*     1.3    58.7    +      -       -      +
    328B  THR*     2.5    29.5    +      -       -      +
    363B  TRP*     3.6    15.4    -      -       -      -
     39D  ARG*     3.8    11.9    +      -       -      +
     40D  LYS*     5.3     1.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with ILE 326 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    285B  SER*     4.4    11.7    -      -       -      -
    292B  ILE*     3.9    29.3    -      -       +      +
    295B  VAL*     4.2    17.0    -      -       +      -
    296B  ILE*     4.2     8.1    -      -       +      -
    301B  PRO*     4.4    10.1    -      -       +      -
    304B  LEU*     4.1    24.5    -      -       +      -
    322B  ALA      3.0    18.4    +      -       -      +
    323B  VAL*     3.5    11.0    -      -       +      +
    325B  ASN*     1.3    74.9    -      -       -      +
    327B  VAL*     1.3    57.3    +      -       -      +
    329B  GLY*     3.0    21.0    +      -       -      -
    333B  GLN*     3.9    16.6    -      -       -      +
    334B  THR*     4.5     0.2    +      -       -      -
    337B  VAL*     3.4    30.7    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 327 (chain B). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    323B  VAL      3.1    12.6    +      -       -      +
    324B  GLY*     3.3    20.0    -      -       -      +
    326B  ILE*     1.3    73.2    -      -       -      +
    328B  THR*     1.3    56.9    +      -       -      +
    329B  GLY      3.0     4.9    -      -       -      -
    334B  THR*     3.6    26.7    -      -       +      +
    337B  VAL*     4.2    17.7    -      -       +      -
    364B  THR*     3.9    18.2    -      -       +      +
    367B  ASN*     3.6    18.6    -      -       +      +
    368B  ILE*     3.8    24.5    -      -       +      -
     36D  MET*     2.8    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