Contacts of the helix formed by residues 1687 - 1709 (chain A) in PDB entry 2HC2
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 GLN1687 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1683A ILE* 4.2 5.8 - - + -
1684A LYS* 2.9 44.6 + - + +
1686A ASN* 1.3 84.4 - - + +
1688A PHE* 1.3 58.1 + - - +
1689A GLU 3.5 2.0 - - - -
1690A GLY* 3.4 4.5 + - - +
1691A HIS* 2.9 29.1 + - + +
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Residues in contact with PHE1688 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1683A ILE* 3.7 36.8 - - + -
1684A LYS 3.2 5.6 + - - +
1685A ILE* 3.2 18.3 + - - +
1686A ASN 3.5 0.4 - - - -
1687A GLN* 1.3 76.1 - - - +
1689A GLU* 1.3 70.5 + - - +
1691A HIS* 3.2 2.2 + + - +
1692A PHE* 2.8 30.8 + - + +
1930A VAL* 3.8 16.4 - - + -
1932A ILE* 3.7 21.8 - - + -
1957A HIS* 3.4 46.7 - + - -
1960A VAL* 3.6 21.8 - - + -
1961A ARG* 3.7 12.3 - - - -
1964A LEU* 3.9 10.5 - - + -
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Residues in contact with GLU1689 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1685A ILE 4.7 0.8 + - - -
1686A ASN 5.3 2.4 - - - +
1687A GLN 3.5 0.2 - - - -
1688A PHE* 1.3 83.4 - - - +
1690A GLY* 1.3 57.9 + - - +
1692A PHE* 3.4 4.5 + - - +
1693A MET* 3.0 51.3 + - - +
1961A ARG* 3.7 16.5 - - + +
1964A LEU* 5.4 2.2 - - + +
1965A ARG* 2.9 55.3 + - - +
1968A LYS* 5.0 14.8 + - - +
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Residues in contact with GLY1690 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1687A GLN* 3.4 6.8 + - - +
1688A PHE 3.2 0.4 - - - -
1689A GLU* 1.3 76.0 - - - +
1691A HIS* 1.3 60.0 + - - +
1693A MET* 3.7 13.4 - - - +
1694A LYS* 2.9 30.7 + - - +
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Residues in contact with HIS1691 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1681A CYS* 6.0 2.9 - - + +
1683A ILE* 2.8 48.3 - - + +
1687A GLN* 2.9 20.5 + - + +
1688A PHE* 3.5 10.5 - + - +
1690A GLY* 1.3 75.7 - - - +
1692A PHE* 1.3 66.0 + - - +
1694A LYS* 3.2 26.1 + - - +
1695A LEU* 2.9 58.0 + - + +
1706A GLU* 4.3 12.2 + - - -
1957A HIS* 4.4 4.1 + + - -
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Residues in contact with PHE1692 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1688A PHE* 2.8 32.2 + - + +
1689A GLU* 3.8 3.6 - - - +
1691A HIS* 1.3 77.5 - - - +
1693A MET* 1.3 64.8 + - + +
1695A LEU* 3.0 5.6 + - + +
1696A GLN* 2.9 59.8 + - + +
1703A LEU* 3.8 19.5 - - + -
1954A VAL* 3.9 7.4 - - + -
1957A HIS* 3.4 40.2 - + + -
1958A GLN* 3.7 34.8 - - + -
1961A ARG* 3.9 25.1 - - + -
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Residues in contact with MET1693 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1689A GLU* 3.0 41.9 + - - +
1690A GLY* 3.7 11.9 - - - +
1691A HIS 3.3 0.2 - - - -
1692A PHE* 1.3 75.5 - - + +
1694A LYS* 1.3 56.8 + - - +
1696A GLN* 3.1 14.9 + - - +
1697A ALA* 2.9 29.3 + - - +
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Residues in contact with LYS1694 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1690A GLY 2.9 17.7 + - - +
1691A HIS* 3.2 28.5 + - - +
1693A MET* 1.3 70.9 - - - +
1695A LEU* 1.3 68.2 + - - +
1696A GLN 3.5 0.2 + - - -
1697A ALA* 3.5 19.9 + - + +
1702A LEU* 4.0 32.8 - - + +
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Residues in contact with LEU1695 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1691A HIS* 2.9 53.2 + - + +
1692A PHE* 3.0 8.0 + - - +
1694A LYS* 1.3 81.4 - - - +
1696A GLN* 1.3 61.1 + - - +
1697A ALA 3.6 0.3 + - - -
1700A ASN* 3.5 8.0 - - - -
1702A LEU* 3.7 32.2 + - + +
1703A LEU* 3.0 47.4 + - + +
1706A GLU* 4.1 18.8 - - + +
1953A TYR* 5.5 0.2 - - + -
1957A HIS* 3.9 22.7 - - + +
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Residues in contact with GLN1696 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1692A PHE* 2.9 61.9 + - + +
1693A MET* 3.1 14.9 + - - +
1695A LEU* 1.3 73.4 - - - +
1697A ALA* 1.3 68.7 + - - +
1698A ASP 3.5 0.7 + - - -
1699A SER* 3.6 2.9 + - - -
1700A ASN* 3.0 33.2 + - - +
1703A LEU* 4.7 2.0 - - + -
1954A VAL* 4.7 5.2 - - + +
1958A GLN* 4.7 9.7 - - - +
1961A ARG* 4.7 7.5 + - - +
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Residues in contact with ALA1697 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1693A MET 2.9 11.9 + - - +
1694A LYS* 3.6 17.7 - - + +
1695A LEU 3.3 2.4 - - - +
1696A GLN* 1.3 80.5 - - - +
1698A ASP* 1.3 70.9 + - + +
1701A TYR* 3.2 14.4 + - - +
1702A LEU* 4.6 0.3 + - - +
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Residues in contact with ASP1698 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1696A GLN 3.5 0.2 + - - -
1697A ALA* 1.3 78.4 - - + +
1699A SER* 1.3 71.5 + - - +
1701A TYR* 3.2 31.2 + - + +
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Residues in contact with SER1699 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1696A GLN 3.6 3.1 + - - -
1697A ALA 3.4 0.6 - - - -
1698A ASP* 1.3 80.5 + - - +
1700A ASN* 1.3 70.2 + - - +
1701A TYR* 3.4 0.9 + - - -
1704A SER* 4.9 1.0 + - - -
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Residues in contact with ASN1700 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1695A LEU 3.5 11.2 - - - -
1696A GLN* 3.0 40.9 + - - +
1699A SER* 1.3 79.2 - - - +
1701A TYR* 1.3 66.6 + - - +
1702A LEU 3.4 1.8 - - - -
1703A LEU* 4.1 8.2 - - + +
1704A SER* 2.9 30.8 + - - +
1950A GLU* 2.9 21.3 + - - +
1954A VAL* 3.9 19.1 - - - +
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Residues in contact with TYR1701 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1697A ALA 3.2 11.1 + - - +
1698A ASP* 3.2 32.5 + - + +
1699A SER 3.3 1.5 - - - -
1700A ASN* 1.3 80.0 - - - +
1702A LEU* 1.3 80.7 + - + +
1704A SER* 3.9 3.8 - - - -
1705A LYS* 3.3 50.9 + - + +
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Residues in contact with LEU1702 (chain A).
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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1694A LYS* 4.0 42.4 - - + +
1695A LEU* 3.7 21.8 + - + +
1697A ALA 4.6 0.8 + - - +
1701A TYR* 1.3 104.0 - - + +
1703A LEU* 1.3 66.7 + - - +
1705A LYS* 3.2 21.4 + - + +
1706A GLU* 2.9 24.4 + - - +
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Residues in contact with LEU1703 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1692A PHE* 3.8 26.2 - - + -
1695A LEU* 3.0 44.1 + - + +
1696A GLN* 4.7 0.7 - - + -
1700A ASN* 3.3 14.8 + - - +
1702A LEU* 1.3 76.2 - - - +
1704A SER* 1.3 56.9 + - - +
1706A GLU* 3.2 4.9 + - - +
1707A TYR* 2.8 25.9 + - + +
1950A GLU* 3.5 38.1 - - + +
1953A TYR* 4.2 17.7 - - + -
1954A VAL* 3.6 27.1 - - + -
1957A HIS* 5.1 2.0 - - - +
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Residues in contact with SER1704 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1699A SER 4.9 1.0 + - - -
1700A ASN* 2.9 23.1 + - - +
1701A TYR* 3.9 4.0 - - - -
1703A LEU* 1.3 76.9 - - - +
1705A LYS* 1.3 56.8 + - - +
1707A TYR* 3.8 2.0 - - - +
1708A GLU* 2.9 46.6 + - - +
1950A GLU* 2.7 33.6 + - - -
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Residues in contact with LYS1705 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1701A TYR* 3.3 46.6 + - + +
1702A LEU* 3.2 26.8 + - + +
1704A SER* 1.3 77.6 - - - +
1706A GLU* 1.3 62.6 + - - +
1708A GLU* 3.4 9.3 + - - +
1709A GLU* 3.2 31.7 + - - +
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Residues in contact with GLU1706 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1678A LYS* 5.6 0.9 + - - -
1681A CYS* 3.9 18.5 - - - +
1691A HIS* 4.3 15.9 + - - -
1695A LEU* 4.1 19.9 - - + +
1702A LEU 2.9 16.5 + - - +
1703A LEU* 3.6 5.6 - - - +
1705A LYS* 1.3 76.0 - - - +
1707A TYR* 1.3 64.8 + - - +
1709A GLU* 3.1 28.2 + - - +
1710A LEU* 3.8 0.3 + - - +
1933A TYR* 3.5 33.5 - - + +
1953A TYR* 2.6 28.2 + - + +
1957A HIS* 4.2 4.2 + - - -
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Residues in contact with TYR1707 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1703A LEU 2.8 16.8 + - - +
1704A SER* 3.8 6.5 - - - +
1706A GLU* 1.3 77.4 - - - +
1708A GLU* 1.3 67.7 + - + +
1710A LEU* 3.0 25.9 + - + +
1711A LYS* 3.9 2.4 + - - -
1940A ARG* 3.2 28.0 + - - -
1947A VAL* 4.7 3.1 - - + -
1948A GLN 3.1 33.1 + - - -
1949A THR* 3.2 17.3 + - - -
1950A GLU* 3.6 29.6 - - + -
1953A TYR* 3.6 41.6 - + + -
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Residues in contact with GLU1708 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1704A SER* 2.9 31.5 + - - +
1705A LYS* 3.8 8.6 - - - +
1707A TYR* 1.3 84.3 - - + +
1709A GLU* 1.3 62.5 + - + +
1711A LYS* 3.0 32.5 + - + +
1950A GLU* 6.2 0.2 - - - +
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Residues in contact with GLU1709 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1677A ARG* 3.3 35.5 + - + +
1678A LYS* 4.1 30.8 + - - +
1705A LYS* 3.2 20.9 + - - +
1706A GLU* 3.1 18.6 + - - +
1708A GLU* 1.3 76.6 - - - +
1710A LEU* 1.3 57.5 + - - +
1711A LYS 3.3 0.4 + - - -
1712A ASP 4.8 0.5 + - - -
1933A TYR* 3.6 19.8 + - - +
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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