Contacts of the helix formed by residues 2149 - 2169 (chain F) in PDB entry 6X34
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.
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 SER2149 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2146F SER* 3.7 14.4 + - - -
2147F PRO 3.4 0.2 - - - -
2148F SER* 1.3 81.7 - - - +
2150F VAL* 1.3 61.6 + - - +
2151F GLU 3.3 2.9 - - - +
2152F ASP* 3.4 10.5 + - - +
2153F THR* 3.2 25.0 + - - +
2190F LYS* 6.4 0.4 - - - -
2191F VAL* 3.7 24.9 - - - +
2194F GLN* 4.6 8.6 + - - -
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Residues in contact with VAL2150 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1737F PRO* 4.2 20.2 - - + -
1739F THR* 5.6 0.9 - - - +
1772F LEU* 5.1 4.7 - - + -
2145F ILE* 5.6 2.0 - - + -
2146F SER 4.4 2.2 - - - +
2147F PRO* 3.8 34.3 - - + +
2148F SER 3.7 1.5 + - - -
2149F SER* 1.3 73.7 - - - +
2151F GLU* 1.3 65.4 + - + +
2153F THR* 2.6 24.1 + - - +
2154F MET* 2.9 31.8 + - + +
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Residues in contact with GLU2151 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2149F SER* 3.3 1.0 - - - +
2150F VAL* 1.3 84.4 - - + +
2152F ASP* 1.3 57.9 + - - +
2154F MET* 3.3 7.9 + - - +
2155F SER* 2.9 29.9 + - - -
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Residues in contact with ASP2152 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2149F SER* 3.4 16.3 + - - +
2150F VAL 3.3 0.4 - - - -
2151F GLU* 1.3 77.6 - - - +
2153F THR* 1.3 58.2 + - - +
2155F SER* 2.7 23.0 + - - -
2156F LEU* 2.9 16.5 + - - +
2189F ASN* 3.4 15.6 + - - +
2190F LYS* 5.5 4.3 - - + +
2191F VAL* 3.9 20.0 - - + +
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Residues in contact with THR2153 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1735F ILE* 5.9 1.1 - - - -
1772F LEU* 3.3 25.9 - - - +
2145F ILE* 3.7 25.0 - - + +
2149F SER* 3.2 16.1 + - - +
2150F VAL* 2.6 24.3 + - - -
2152F ASP* 1.3 77.3 - - - +
2154F MET* 1.3 55.1 + - - +
2156F LEU* 3.3 7.4 + - + +
2157F LEU* 2.9 39.1 + - - +
2191F VAL* 4.3 22.0 - - + -
2198F LEU* 5.3 6.1 - - + -
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Residues in contact with MET2154 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1772F LEU* 3.8 31.4 - - + -
1773F ARG 4.2 21.8 - - - +
1774F PRO* 5.0 4.9 - - + +
1775F PRO* 5.4 11.3 - - + +
2150F VAL* 2.9 30.1 + - + +
2151F GLU* 3.7 7.4 - - - +
2153F THR* 1.3 79.9 + - - +
2155F SER* 1.3 56.8 + - - +
2157F LEU* 3.3 8.1 + - - +
2158F GLU* 2.9 29.8 + - - +
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Residues in contact with SER2155 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2151F GLU 2.9 13.6 + - - -
2152F ASP* 2.7 26.3 + - - -
2154F MET* 1.3 76.3 - - - +
2156F LEU* 1.3 56.6 + - - +
2158F GLU* 3.4 5.9 + - - +
2159F CYS* 2.9 32.5 + - - +
2185F ASN* 5.3 4.9 + - - +
2189F ASN* 4.3 4.9 + - - -
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Residues in contact with LEU2156 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2152F ASP 2.9 17.8 + - - +
2153F THR* 3.6 9.0 - - + +
2154F MET 3.3 0.2 - - - -
2155F SER* 1.3 77.0 + - - +
2157F LEU* 1.3 57.9 + - + +
2159F CYS* 3.1 18.7 - - - -
2160F LEU* 2.9 38.2 + - + +
2185F ASN* 5.9 0.4 - - - +
2186F ILE* 4.3 19.5 - - + +
2189F ASN* 3.7 32.8 - - + +
2191F VAL* 5.6 5.8 - - + -
2192F PHE* 5.4 13.0 - - + +
2198F LEU* 5.8 7.4 - - + -
2202F LEU* 5.2 8.1 - - + -
2204F MET* 4.8 19.7 - - + -
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Residues in contact with LEU2157 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1730F MET* 3.4 31.4 - - + +
1733F GLU* 6.0 3.8 - - + -
1735F ILE* 4.0 27.8 - - + -
1772F LEU* 4.1 37.2 - - + +
1773F ARG 5.6 0.2 - - - -
1774F PRO* 5.0 7.4 - - + -
2153F THR* 2.9 26.5 + - - +
2154F MET* 3.7 6.3 - - - +
2156F LEU* 1.3 78.9 - - + +
2158F GLU* 1.3 62.8 + - - +
2160F LEU* 3.2 22.2 - - + +
2161F GLY 2.9 19.1 + - - -
2198F LEU* 6.2 0.4 - - + -
2202F LEU* 4.3 7.4 - - + -
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Residues in contact with GLU2158 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1730F MET* 4.7 2.6 - - - +
1774F PRO* 4.3 19.4 - - + +
1775F PRO* 5.3 5.6 - - + -
1777F HIS* 6.3 3.1 - - + -
2154F MET 2.9 17.6 + - - +
2155F SER* 3.8 6.1 - - - +
2157F LEU* 1.3 77.2 - - - +
2159F CYS* 1.3 56.7 + - - +
2161F GLY* 3.3 2.4 + - - -
2162F GLN* 2.9 27.2 + - - +
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Residues in contact with CYS2159 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2155F SER 2.9 18.3 + - - +
2156F LEU* 3.1 32.8 - - - -
2158F GLU* 1.3 76.7 - - - +
2160F LEU* 1.3 59.0 + - - +
2162F GLN* 3.2 13.7 + - - +
2163F ILE* 2.9 34.6 + - + +
2182F SER* 4.9 6.0 - - - -
2185F ASN* 4.3 17.0 - - + +
2186F ILE* 3.5 30.1 - - + -
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Residues in contact with LEU2160 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1730F MET* 4.9 8.7 - - + -
2156F LEU* 2.9 26.8 + - + +
2157F LEU* 3.2 27.1 - - + +
2159F CYS* 1.3 75.1 - - - +
2161F GLY* 1.3 63.8 + - - +
2163F ILE* 3.3 14.5 + - + +
2164F ARG* 2.9 69.5 + - - +
2186F ILE* 6.1 1.1 - - + -
2202F LEU* 3.7 32.3 - - + -
2204F MET* 5.3 9.2 - - + -
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Residues in contact with GLY2161 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1726F SER* 4.8 10.3 + - - -
1729F SER* 5.6 2.5 - - - -
1730F MET* 3.7 24.2 - - - -
2157F LEU 2.9 11.7 + - - -
2158F GLU 3.7 1.8 - - - -
2160F LEU* 1.3 81.5 - - - +
2162F GLN* 1.3 55.9 + - - +
2164F ARG* 3.3 8.4 + - - +
2165F SER* 2.9 29.6 + - - -
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Residues in contact with GLN2162 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1796F PRO* 6.2 2.0 - - - +
2158F GLU 2.9 13.0 + - - +
2159F CYS* 3.2 16.2 + - - +
2161F GLY* 1.3 74.1 - - - +
2163F ILE* 1.3 59.6 + - + +
2165F SER* 3.0 8.5 + - - +
2166F LEU* 2.9 45.6 + - + +
2178F LEU* 3.4 39.3 - - + +
2182F SER* 5.7 4.9 - - - -
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Residues in contact with ILE2163 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2159F CYS 2.9 25.8 + - - +
2160F LEU* 3.6 16.2 - - + +
2162F GLN* 1.3 74.8 - - - +
2164F ARG* 1.3 59.0 + - + +
2166F LEU* 3.4 5.1 + - - +
2167F LEU* 2.9 27.4 + - + +
2179F MET* 3.7 33.2 - - + +
2182F SER* 3.6 29.8 - - - -
2183F ILE* 5.0 2.9 - - + -
2186F ILE* 4.0 28.0 - - + -
2207F THR* 5.1 12.6 - - - +
2208F VAL* 6.3 1.1 - - + -
2211F VAL* 5.0 6.7 - - + -
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Residues in contact with ARG2164 (chain F).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1729F SER* 2.7 49.8 + - - +
1730F MET* 4.7 3.0 - - - +
1732F SER* 5.9 0.2 + - - -
2160F LEU* 2.9 47.2 + - - +
2161F GLY* 3.7 6.3 - - - +
2162F GLN 3.3 0.2 - - - -
2163F ILE* 1.3 78.0 - - + +
2165F SER* 1.3 56.5 + - - +
2167F LEU* 3.2 6.9 + - - +
2168F ILE* 2.9 39.0 + - + +
2202F LEU* 3.3 27.7 + - - +
2203F GLY 5.3 0.2 - - - -
2204F MET* 6.0 0.2 - - - +
2207F THR* 4.1 29.5 - - + +
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Residues in contact with SER2165 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1677F GLY* 6.2 4.3 - - - -
1725F ARG* 5.5 8.7 - - - +
1726F SER* 4.9 10.3 - - - -
2161F GLY 2.9 15.1 + - - -
2162F GLN* 3.0 14.9 + - - +
2164F ARG* 1.3 76.1 - - - +
2166F LEU* 1.3 74.5 + - - +
2168F ILE* 3.5 11.1 + - - +
2169F VAL* 3.3 26.9 + - - +
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Residues in contact with LEU2166 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2162F GLN* 2.9 35.1 + - + +
2163F ILE* 3.9 5.6 - - - +
2165F SER* 1.3 85.7 + - - +
2167F LEU* 1.3 59.1 + - - +
2169F VAL* 2.8 32.2 + - + +
2170F GLN 4.9 0.9 - - - +
2171F MET* 5.3 1.4 + - - -
2174F GLN* 5.2 2.5 - - - +
2175F GLU* 4.0 35.0 - - + +
2178F LEU* 3.7 37.5 - - + -
2179F MET* 5.6 9.2 - - + +
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Residues in contact with LEU2167 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2163F ILE* 2.9 18.8 + - + +
2164F ARG* 3.2 8.2 + - - +
2166F LEU* 1.3 75.4 - - - +
2168F ILE* 1.3 66.0 + - + +
2169F VAL 3.4 5.6 - - - +
2179F MET* 6.1 1.5 - - + -
2210F GLU* 6.5 0.4 - - + -
2211F VAL* 3.7 28.0 - - + -
2214F ASN* 4.4 16.0 + - - +
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Residues in contact with ILE2168 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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611F GLY 4.2 19.7 - - - +
612F VAL* 4.7 7.3 - - - +
613F ALA* 4.8 0.9 + - - +
1676F LEU* 4.9 16.6 - - + +
1725F ARG* 3.7 37.2 - - + +
2164F ARG* 2.9 25.4 + - + +
2165F SER* 3.8 6.3 - - - +
2166F LEU 3.4 0.2 - - - -
2167F LEU* 1.3 78.7 - - + +
2169F VAL* 1.3 63.5 + - + +
2170F GLN 3.8 1.0 + - - -
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Residues in contact with VAL2169 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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613F ALA* 3.8 21.1 - - + +
615F CYS* 4.5 16.4 - - - -
1676F LEU 3.3 26.2 - - - +
1677F GLY* 4.1 13.2 - - - +
2165F SER 3.3 17.1 + - - +
2166F LEU* 2.8 30.2 + - + +
2167F LEU 3.3 6.7 - - - +
2168F ILE* 1.3 79.6 - - + +
2170F GLN* 1.3 77.5 + - - +
2171F MET 3.5 1.4 + - - -
2175F GLU* 5.9 1.3 - - + -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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