Contacts of the strand formed by residues 316 - 324 (chain D) 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 316 (chain D).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    299D  LEU*     5.1    11.7    -      -       +      -
    308D  THR*     4.0    10.8    -      -       -      -
    312D  ASN*     3.2    41.5    -      -       +      -
    315D  TYR*     1.3    86.9    -      -       -      +
    317D  ASN*     1.3    62.9    +      -       -      +
    318D  VAL      4.6     7.4    -      -       -      +
    319D  TYR*     4.2    27.4    -      +       +      -
    344D  PHE      5.3     0.2    -      -       -      -
    345D  PRO*     3.6    25.4    -      -       +      -
    346D  SER*     3.3    35.7    +      -       -      +
    347D  TRP*     3.4    18.7    -      -       +      -
    354D  VAL*     4.6     0.7    -      -       -      +
    376D  MET*     5.4     2.0    -      -       +      -
    378D  SER*     4.5    16.4    -      -       -      -
    379D  ASN      3.9     5.6    -      -       -      +
    380D  MET*     3.8    13.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ASN 317 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    261D  PRO*     4.3    20.1    -      -       +      +
    265D  LEU*     3.9    23.8    -      -       -      +
    315D  TYR*     3.5    33.7    +      -       +      -
    316D  PHE*     1.3    72.6    -      -       -      +
    318D  VAL*     1.4    63.2    +      -       -      +
    354D  VAL*     3.3    22.9    -      -       -      +
    379D  ASN*     2.9    45.0    +      -       -      +
    380D  MET*     3.4     1.2    -      -       -      +
    381D  SER*     3.4    19.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with VAL 318 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    259D  LEU*     3.4    52.0    -      -       +      +
    261D  PRO*     4.8     1.3    -      -       +      -
    268D  LEU*     5.3     4.5    -      -       +      -
    316D  PHE*     3.6     4.7    -      -       -      +
    317D  ASN*     1.4    79.7    +      -       +      +
    319D  TYR*     1.3    81.1    +      -       -      +
    320D  ASN*     5.4     2.7    -      -       +      +
    354D  VAL*     3.6    25.4    -      -       +      +
    356D  ILE*     5.2     1.1    -      -       +      +
    377D  LEU      5.2     0.2    -      -       -      -
    378D  SER*     3.5     4.4    -      -       -      -
    379D  ASN*     3.0    52.0    +      -       +      +
----------------------------------------------------------
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Residues in contact with TYR 319 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    296D  LEU*     2.8    30.3    +      -       -      +
    297D  ASP*     4.3     6.7    +      -       -      -
    299D  LEU*     4.7     9.7    -      -       +      +
    316D  PHE*     4.2    24.7    -      +       +      -
    318D  VAL*     1.3    85.2    -      -       -      +
    320D  ASN*     1.4    79.7    +      -       -      +
    321D  THR*     3.5    22.2    -      -       +      -
    344D  PHE*     6.3     1.8    -      -       +      -
    345D  PRO*     4.2    19.7    -      -       +      -
    347D  TRP*     6.3     0.2    -      -       +      -
    354D  VAL      3.6     3.5    +      -       -      +
    355D  ASN*     3.5    19.7    -      -       +      -
    356D  ILE*     2.9    28.3    +      -       -      +
    376D  MET*     3.6    28.2    -      -       +      +
    377D  LEU      3.9     0.9    -      -       -      -
    378D  SER*     3.1    16.8    -      -       -      +
----------------------------------------------------------
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Residues in contact with ASN 320 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    238D  VAL*     6.0     0.6    -      -       -      +
    255D  ILE*     6.2     0.2    -      -       +      -
    259D  LEU*     3.8    27.9    -      -       +      +
    268D  LEU*     5.2     3.8    -      -       -      +
    318D  VAL*     5.5     2.9    -      -       -      +
    319D  TYR*     1.4    80.3    -      -       -      +
    321D  THR*     1.4    62.7    +      -       -      +
    322D  ILE*     4.0    20.0    -      -       -      +
    356D  ILE*     3.3    18.6    -      -       +      -
    358D  ARG*     5.6     2.5    -      -       -      +
    376D  MET*     3.5     1.6    -      -       -      -
    377D  LEU*     2.9    77.4    +      -       -      +
    378D  SER*     5.0     0.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with THR 321 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    296D  LEU*     4.0    36.6    -      -       +      -
    319D  TYR*     3.5    22.4    -      -       +      -
    320D  ASN*     1.4    74.9    -      -       -      +
    322D  ILE*     1.4    58.5    +      -       -      +
    323D  ILE*     4.2    15.5    -      -       +      -
    356D  ILE      2.7    16.8    +      -       -      -
    357D  GLY*     3.2     7.4    -      -       -      -
    358D  ARG*     2.8    34.0    +      -       -      +
    375D  MET      3.8     2.9    -      -       -      +
    376D  MET*     5.8     0.7    -      -       -      -
----------------------------------------------------------
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Residues in contact with ILE 322 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    237D  SER*     4.3    11.0    -      -       -      +
    238D  VAL*     3.9    25.1    -      -       +      +
    240D  ASN*     5.5     2.5    -      -       +      -
    292D  TYR*     4.0     0.3    +      -       -      -
    320D  ASN*     4.0    20.0    -      -       -      +
    321D  THR*     1.4    71.5    -      -       -      +
    323D  ILE*     1.4    70.0    +      -       -      +
    324D  GLY*     4.9     1.1    -      -       -      +
    358D  ARG*     3.7    44.6    -      -       -      +
    360D  SER*     6.5     0.2    -      -       -      -
    374D  GLY*     3.0     8.6    -      -       -      -
    375D  MET*     2.9    62.8    +      -       +      +
    377D  LEU*     5.2     0.2    -      -       +      -
----------------------------------------------------------
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Residues in contact with ILE 323 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    289D  HIS*     6.1     2.5    -      -       -      +
    292D  TYR*     3.4    36.8    -      -       +      +
    296D  LEU*     5.1     2.7    -      -       +      -
    321D  THR*     4.2    17.0    -      -       +      -
    322D  ILE*     1.4    82.3    -      -       -      +
    324D  GLY*     1.4    58.4    +      -       -      +
    325D  ASN      4.1    16.2    -      -       -      +
    332D  SER*     4.7     8.5    -      -       -      +
    335D  MET*     5.7     4.0    -      -       +      -
    357D  GLY*     5.7     2.2    -      -       -      -
    358D  ARG*     2.8    23.4    +      -       -      +
    359D  ARG*     3.7    30.9    -      -       +      -
    360D  SER*     3.0    31.5    +      -       -      +
    372D  VAL*     4.3     2.9    -      -       +      -
    373D  SER      4.2     0.9    -      -       -      +
----------------------------------------------------------
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Residues in contact with GLY 324 (chain D). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    240D  ASN*     6.0     3.1    -      -       -      -
    322D  ILE*     4.0     3.3    +      -       -      +
    323D  ILE*     1.4    69.9    -      -       -      +
    325D  ASN*     1.4    68.3    +      -       -      +
    360D  SER*     3.4     6.1    -      -       -      -
    361D  PRO      5.3     1.3    -      -       -      -
    362D  TYR*     3.6    15.5    -      -       -      -
    372D  VAL*     3.3     3.4    -      -       -      +
    373D  SER*     3.0    34.5    +      -       -      +
    374D  GLY*     4.6     0.4    -      -       -      -
----------------------------------------------------------
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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