Contacts of the strand formed by residues 150 - 158 (chain G) in PDB entry 3SZ9


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 150 (chain G).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    144G  ILE      5.5     0.7    -      -       -      +
    146G  ILE*     3.9    22.2    -      -       +      +
    147G  ASP      3.5    17.5    -      -       -      -
    148G  GLY*     2.9     6.0    +      -       -      -
    149G  ASP*     1.3    92.8    -      -       +      +
    151G  PHE*     1.3    60.3    +      -       -      +
    492G  THR*     3.9    11.9    -      -       +      -
    493G  VAL      3.3     6.7    -      -       -      +
    494G  LYS*     3.6    24.5    -      -       +      -
    495G  VAL*     3.7     7.2    -      -       -      +
    498G  LYS*     3.8    17.7    -      -       -      +
   6811G  GAI      3.5    19.1    -      -       -      -
    285H  TRP*     6.5     0.2    -      +       -      -
    455H  CYS*     3.8    20.4    -      -       +      -
    458H  VAL*     3.6    36.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with PHE 151 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    440E  ASN*     4.6    10.5    -      -       -      -
    151F  PHE*     4.5     2.0    -      +       -      -
    153F  TYR*     3.5    44.9    -      +       -      -
    155F  ARG*     5.7     0.2    -      -       +      -
   6901F  EDO      3.4    29.2    -      -       -      -
    143G  THR*     4.0    18.6    -      -       +      -
    144G  ILE      5.8     0.4    -      -       -      -
    150G  PHE*     1.3    72.3    -      -       -      +
    152G  SER*     1.3    65.3    +      -       -      +
    153G  TYR*     3.4    37.0    -      +       +      -
    491G  VAL      3.6     2.1    -      -       -      +
    492G  THR*     3.5     1.2    -      -       -      -
    493G  VAL*     2.8    47.4    +      -       +      +
    495G  VAL*     3.8    19.9    -      -       +      +
----------------------------------------------------------
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Residues in contact with SER 152 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    143G  THR*     3.7     2.6    -      -       -      -
    144G  ILE*     2.8    37.1    +      -       -      +
    146G  ILE*     3.8    20.9    -      -       -      -
    150G  PHE      4.0     0.8    -      -       -      -
    151G  PHE*     1.3    79.8    -      -       -      +
    153G  TYR*     1.3    65.1    +      -       -      +
    490G  THR*     3.6     5.7    -      -       -      +
    491G  VAL      3.3     2.9    -      -       -      -
    492G  THR*     2.9    22.8    +      -       -      -
    463H  SER*     2.7    27.1    +      -       -      -
----------------------------------------------------------
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Residues in contact with TYR 153 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    143F  THR*     3.8    14.8    -      -       +      -
    151F  PHE*     3.4    28.4    -      +       -      -
    501F  EDO      2.7    35.8    +      -       -      -
    142G  LYS      3.2    14.8    -      -       -      +
    143G  THR*     4.0     8.7    -      -       +      -
    144G  ILE*     4.6     3.8    -      -       -      -
    151G  PHE*     3.4    37.2    -      +       +      -
    152G  SER*     1.3    76.0    +      -       -      +
    154G  THR*     1.3    67.1    +      -       -      +
    155G  ARG*     4.1     5.6    -      -       +      -
    490G  THR*     3.3     5.2    -      -       -      +
    491G  VAL*     2.7    78.4    +      -       +      +
    493G  VAL*     4.5     5.8    -      -       +      +
    440H  ASN*     4.3     4.7    +      -       -      -
    443H  SER*     4.0     1.7    +      -       -      -
----------------------------------------------------------
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Residues in contact with THR 154 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    143F  THR*     2.8    31.0    +      -       -      +
    141G  GLY*     3.6     2.9    -      -       -      -
    142G  LYS*     3.0    21.8    +      -       -      +
    144G  ILE*     3.9     8.3    -      -       +      -
    153G  TYR*     1.3    79.2    -      -       -      +
    155G  ARG*     1.3    59.8    +      -       -      +
    488G  VAL*     3.8    11.0    -      -       +      -
    489G  LYS      2.9     7.2    -      -       -      +
    490G  THR*     3.6    23.1    -      -       -      +
    464H  PRO*     3.6    24.2    -      -       +      -
    480H  TYR*     2.8    24.4    +      -       +      +
----------------------------------------------------------
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Residues in contact with ARG 155 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    143F  THR*     4.5     3.8    -      -       -      +
    151F  PHE*     5.7     1.1    -      -       +      -
    498F  LYS*     6.4     0.4    -      -       -      +
    499F  ASN      3.2    23.8    +      -       -      -
    500F  SER*     3.4    19.9    +      -       -      +
    501F  EDO      2.9    46.5    +      -       -      +
     77G  ARG*     5.5     0.4    -      -       -      +
    153G  TYR*     4.1    10.1    +      -       +      -
    154G  THR*     1.3    75.6    -      -       -      +
    156G  HIS*     1.3    63.2    +      -       -      +
    157G  GLU*     2.7    36.4    +      -       +      +
    487G  GLU      3.6     0.5    -      -       -      +
    488G  VAL*     3.7     2.6    -      -       -      -
    489G  LYS*     2.8    50.5    +      -       +      +
    491G  VAL*     4.4     2.0    -      -       +      -
    444H  GLN*     3.6    28.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with HIS 156 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    143F  THR*     5.1     0.2    +      -       -      -
    500F  SER*     4.1     6.2    -      -       -      +
    139G  TYR*     3.6    44.5    +      +       +      +
    140G  HIS      3.2    22.5    +      -       -      -
    141G  GLY*     3.8    15.0    -      -       -      +
    142G  LYS*     5.5     3.8    -      -       -      -
    154G  THR*     4.1     3.0    +      -       -      -
    155G  ARG*     1.3    78.0    -      -       -      +
    157G  GLU*     1.3    62.1    +      -       -      +
    158G  PRO*     4.7     0.3    -      -       -      +
    486G  THR*     3.5    16.8    -      -       +      +
    487G  GLU      3.9     0.4    -      -       -      -
    488G  VAL*     4.2    11.7    -      -       +      -
    480H  TYR*     2.7    39.8    +      +       -      -
----------------------------------------------------------
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Residues in contact with GLU 157 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    500F  SER*     3.7    13.9    -      -       -      +
     77G  ARG*     5.5     2.2    +      -       -      -
    155G  ARG*     2.7    41.2    +      -       +      +
    156G  HIS*     1.3    76.6    -      -       -      +
    158G  PRO*     1.3    64.5    -      -       +      +
    185G  THR*     5.0     1.3    -      -       -      -
    486G  THR*     3.3     6.2    -      -       -      -
    487G  GLU      2.7    42.9    +      -       -      +
    489G  LYS*     2.8    25.6    +      -       -      -
   6801G  GAI      3.2    23.5    +      -       -      +
    444H  GLN      4.0     2.8    -      -       -      +
    447H  GLN*     5.9     0.2    -      -       -      -
    468H  TYR*     2.5    29.9    +      -       -      +
----------------------------------------------------------
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Residues in contact with PRO 158 (chain G). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
    500F  SER*     3.5    36.8    -      -       -      +
     70G  PHE*     3.7    15.9    -      -       +      -
     77G  ARG*     4.8     0.2    -      -       -      +
    156G  HIS      4.7     0.4    -      -       -      +
    157G  GLU*     1.3    88.3    -      -       +      +
    159G  VAL*     1.3    60.5    +      -       -      +
    185G  THR*     3.3    24.8    -      -       -      +
    186G  GLY      3.5    21.5    -      -       -      +
    187G  ASN*     3.5     9.6    -      -       -      +
    485G  TYR      3.8     6.3    -      -       -      +
    487G  GLU*     4.0     1.6    -      -       -      +
   6801G  GAI      2.8    31.6    +      -       -      +
----------------------------------------------------------
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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