Contacts of the strand formed by residues 267 - 273 (chain C) in PDB entry 5FLZ


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 PHE 267 (chain C).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    191C  LEU*     5.4     7.6    -      -       +      -
    194C  LEU*     6.1     0.7    -      -       +      -
    195C  ILE*     3.7    22.9    -      -       +      -
    201C  THR*     3.4    19.3    -      -       +      -
    203C  VAL*     4.6    12.6    -      -       +      -
    264C  GLU      3.5    18.6    -      -       -      -
    265C  LEU*     4.4     5.8    -      -       +      -
    266C  HIS*     1.4   112.5    -      +       -      +
    268C  LEU*     1.4    61.0    +      -       -      +
    269C  SER      4.2     0.2    +      -       -      -
    379C  ASN*     3.2    25.0    +      -       -      +
    380C  MET      4.4     4.0    +      -       -      +
    383C  VAL*     4.5    16.4    -      -       +      -
    387C  PHE*     3.9    32.3    -      +       +      -
    430C  VAL*     4.4    11.7    -      -       +      -
    434C  MET*     4.4    20.0    -      -       +      -
----------------------------------------------------------
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Residues in contact with LEU 268 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    200C  ALA*     4.9     3.4    -      -       +      -
    201C  THR      2.9    20.4    +      -       -      +
    202C  VAL*     4.3    18.4    -      -       +      +
    203C  VAL*     3.2    30.3    +      -       -      +
    259C  LEU*     3.9    29.2    -      -       +      -
    260C  ILE*     4.5    16.8    -      -       +      -
    266C  HIS*     3.2    30.1    -      -       -      +
    267C  PHE*     1.4    74.1    -      -       -      +
    269C  SER*     1.3    65.0    +      -       -      +
    270C  PRO*     4.3     0.4    -      -       -      -
    377C  LEU*     5.4     8.5    -      -       +      -
    378C  SER      3.5    24.7    -      -       -      +
    379C  ASN*     4.0    14.6    -      -       +      +
----------------------------------------------------------
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Residues in contact with SER 269 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    267C  PHE      4.2     0.4    +      -       -      -
    268C  LEU*     1.3    74.4    -      -       -      +
    270C  PRO*     1.3    69.0    -      -       -      +
    271C  SER*     5.9     0.4    -      -       -      -
    304C  SER*     3.8    18.0    +      -       -      -
    306C  VAL*     3.8    14.2    -      -       -      +
    376C  MET*     3.8     3.9    -      -       -      +
    377C  LEU*     3.8     2.3    -      -       -      -
    378C  SER*     2.9    34.8    +      -       -      -
    380C  MET*     3.7    33.4    +      -       -      +
    382C  THR*     5.5     0.2    -      -       -      +
    383C  VAL*     5.2     5.5    -      -       -      +
----------------------------------------------------------
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Residues in contact with PRO 270 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    202C  VAL*     4.6     5.6    -      -       +      -
    203C  VAL      3.6    17.9    -      -       -      +
    204C  PHE*     3.7    30.5    -      -       +      -
    234C  ILE*     4.8     7.6    -      -       +      -
    268C  LEU      4.1     1.8    -      -       -      +
    269C  SER*     1.3    88.8    -      -       -      +
    271C  SER*     1.4    66.8    +      -       -      +
    302C  SER*     4.3     0.2    -      -       -      -
    303C  ASN*     3.9    26.4    +      -       +      +
    304C  SER*     3.5    19.0    +      -       -      +
    375C  MET*     6.1     1.8    -      -       +      -
    376C  MET*     3.2    11.2    -      -       -      +
    377C  LEU*     4.3    12.6    -      -       +      -
----------------------------------------------------------
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Residues in contact with SER 271 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    269C  SER*     5.9     0.2    -      -       -      -
    270C  PRO*     1.4    76.5    +      -       -      +
    272C  PHE*     1.4    65.2    -      -       -      +
    296C  LEU*     3.0    48.2    +      -       -      -
    302C  SER*     3.6    11.6    -      -       -      -
    303C  ASN*     4.5     2.5    -      -       -      -
    304C  SER*     5.2     0.7    +      -       -      -
    312C  ASN*     5.7     0.7    +      -       -      -
    375C  MET*     3.4     6.9    -      -       -      +
    376C  MET*     3.0    48.6    +      -       -      +
    380C  MET*     5.8     1.7    -      -       -      +
----------------------------------------------------------
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Residues in contact with PHE 272 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    230C  LEU*     6.2     1.8    -      -       +      -
    233C  THR*     4.8    11.7    -      -       +      -
    234C  ILE*     4.5    27.1    -      -       +      -
    237C  SER*     4.0    24.5    -      -       -      -
    271C  SER*     1.4    76.3    -      -       -      +
    273C  THR*     1.3    85.3    +      -       -      +
    274C  PRO*     3.3    28.3    -      -       +      -
    275C  PHE*     3.3    38.1    -      +       +      -
    295C  MET*     5.1     2.4    -      -       -      +
    296C  LEU*     3.5    11.4    -      -       -      +
    301C  PRO      4.7     1.0    -      -       -      +
    302C  SER*     5.0     2.3    -      -       -      +
    303C  ASN*     3.7    16.6    +      -       -      +
    373C  SER*     5.9     2.0    -      -       -      -
    374C  GLY      3.7    11.4    -      -       -      -
    375C  MET*     3.8    32.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 273 (chain C). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    272C  PHE*     1.3    87.8    +      -       -      +
    274C  PRO*     1.4    75.4    -      -       +      +
    275C  PHE*     4.6     2.3    -      -       -      -
    287C  LYS*     4.2    12.3    -      -       +      -
    292C  TYR*     3.6    29.9    -      -       +      -
    295C  MET*     3.4    38.2    -      -       -      +
    296C  LEU*     4.0     0.9    -      -       -      +
    372C  VAL      4.1    16.8    -      -       -      +
    373C  SER*     3.6     2.1    -      -       -      -
    374C  GLY      2.9    26.9    +      -       -      +
----------------------------------------------------------
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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