Contacts of the strand formed by residues 173 - 181 (chain A) in PDB entry 4MT5


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 ILE 173 (chain A).
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     88A  VAL*     5.4     0.4    -      -       +      -
     89A  THR      2.8    12.3    +      -       -      +
     90A  GLU*     3.3    27.2    -      -       +      +
     91A  THR*     2.7    33.6    +      -       -      +
    143A  PHE*     4.4    10.5    -      -       +      -
    164A  PHE*     3.7    43.1    -      -       +      -
    166A  VAL*     4.2    19.3    -      -       +      -
    171A  LYS      4.0     7.2    -      -       -      +
    172A  ASP*     1.3    76.2    -      -       -      +
    174A  VAL*     1.3    63.7    +      -       -      +
    175A  LYS*     4.5    18.4    -      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 174 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     91A  THR*     3.6     9.9    -      -       -      +
     93A  HIS*     4.0    29.2    -      -       +      +
    172A  ASP*     3.9    12.2    +      -       +      +
    173A  ILE*     1.3    80.2    -      -       -      +
    175A  LYS*     1.3    74.0    +      -       -      +
    176A  THR*     5.2     2.2    -      -       -      +
----------------------------------------------------------
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Residues in contact with LYS 175 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     91A  THR      3.0     5.9    +      -       -      +
     92A  ILE*     3.2    28.8    -      -       +      +
     93A  HIS*     3.0    22.3    +      -       -      +
    158A  HIS*     6.5     0.9    -      -       +      -
    161A  ILE*     3.8    27.8    -      -       +      -
    164A  PHE*     3.9    29.0    -      -       +      -
    173A  ILE*     4.5    12.5    -      -       +      +
    174A  VAL*     1.3    85.1    +      -       -      +
    176A  THR*     1.3    63.7    +      -       -      +
    177A  VAL*     5.4     1.1    -      -       +      -
----------------------------------------------------------
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Residues in contact with THR 176 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     93A  HIS*     3.5    29.8    -      -       +      +
     95A  VAL*     3.9    25.8    -      -       +      -
     99A  ASN*     5.8     2.0    -      -       -      +
    157A  ASN*     4.8     1.0    +      -       -      +
    158A  HIS*     4.5    13.0    -      -       -      -
    174A  VAL*     5.2     2.6    -      -       -      +
    175A  LYS*     1.3    77.2    +      -       -      +
    177A  VAL*     1.3    65.2    +      -       -      +
    178A  VAL*     4.1     9.7    +      -       +      +
----------------------------------------------------------
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Residues in contact with VAL 177 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     92A  ILE*     3.6    28.0    -      -       +      -
     93A  HIS      2.5    12.5    +      -       -      +
     94A  TYR*     3.4    16.4    -      -       +      -
     95A  VAL*     2.8    32.7    +      -       -      +
    148A  SER*     3.8    20.4    -      -       -      +
    156A  PRO*     3.8    22.2    -      -       +      -
    157A  ASN*     3.9     7.9    -      -       -      +
    158A  HIS*     3.9    14.1    -      -       +      +
    160A  GLN      6.4     0.2    -      -       -      -
    161A  ILE*     5.7     7.6    -      -       +      +
    175A  LYS*     5.4     0.9    -      -       +      -
    176A  THR*     1.3    75.5    -      -       -      +
    178A  VAL*     1.3    59.7    +      -       -      +
    179A  TYR*     4.2     7.8    -      -       +      -
----------------------------------------------------------
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Residues in contact with VAL 178 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     95A  VAL*     3.8    15.3    -      -       +      -
     96A  ASP      3.4    28.3    -      -       -      +
     97A  GLU*     4.4     9.4    -      -       -      +
    156A  PRO*     3.4     0.3    -      -       -      +
    157A  ASN*     3.0    52.6    +      -       -      +
    176A  THR*     4.5     9.9    -      -       +      +
    177A  VAL*     1.3    75.7    -      -       -      +
    179A  TYR*     1.3    69.6    +      -       -      +
    180A  VAL*     3.8     6.5    +      -       +      +
----------------------------------------------------------
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Residues in contact with TYR 179 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     94A  TYR*     3.9    26.5    -      +       +      -
     95A  VAL      3.0    14.1    +      -       -      +
     96A  ASP*     3.6    20.0    -      -       -      +
     97A  GLU*     4.0     5.7    -      -       -      +
    102A  VAL*     3.6    22.2    -      -       +      -
    103A  GLN*     4.9     0.9    -      -       +      -
    148A  SER*     3.7     4.9    -      -       -      -
    149A  PRO*     2.3    45.2    +      -       -      +
    151A  VAL*     3.5    28.8    -      -       +      +
    154A  TYR*     3.7    30.6    -      +       +      -
    155A  THR      4.0     2.2    -      -       -      -
    156A  PRO*     3.5    37.5    -      -       +      -
    177A  VAL*     4.2     7.4    -      -       +      -
    178A  VAL*     1.3    78.6    -      -       -      +
    180A  VAL*     1.3    62.3    +      -       -      +
    181A  GLY      3.9     1.2    +      -       -      -
----------------------------------------------------------
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Residues in contact with VAL 180 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     97A  GLU*     3.4    21.5    -      -       -      +
    154A  TYR*     3.2     3.5    -      -       -      -
    155A  THR*     3.0    42.9    +      -       -      +
    157A  ASN*     5.6     7.6    -      -       +      +
    178A  VAL*     4.7     9.0    -      -       +      +
    179A  TYR*     1.3    74.0    -      -       -      +
    181A  GLY*     1.3    76.0    +      -       -      +
    182A  ASP*     3.6     1.6    +      -       -      +
    183A  PRO*     5.5     4.9    -      -       +      -
----------------------------------------------------------
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Residues in contact with GLY 181 (chain A). Click here for Legend to table.
----------------------------------------------------------
                                  Specific contacts
                               ---------------------------
     Residue       Dist    Surf   HB    Arom    Phob    DC
----------------------------------------------------------
     97A  GLU*     4.1     6.9    +      -       -      +
    153A  GLY      3.6     1.3    -      -       -      -
    154A  TYR*     3.5    24.3    -      -       -      -
    179A  TYR      3.9     1.0    +      -       -      -
    180A  VAL*     1.3    85.6    -      -       -      +
    182A  ASP*     1.3    64.2    +      -       -      -
    183A  PRO*     3.2    12.0    -      -       -      +
----------------------------------------------------------
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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