Contacts of the helix formed by residues 1691 - 1718 (chain A) in PDB entry 4W8F
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 SER1691 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1690A SER* 1.3 76.8 - - - +
1692A ASP* 1.3 54.6 + - - +
1693A ASN* 3.8 7.7 + - - +
1694A VAL* 3.3 19.5 + - - +
1695A LYS* 2.7 31.9 + - - +
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Residues in contact with ASP1692 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1690A SER 4.8 1.9 - - - +
1691A SER* 1.3 74.9 - - - +
1693A ASN* 1.3 62.9 + - - +
1695A LYS* 3.6 29.3 - - - +
1696A LYS* 3.5 29.7 + - - +
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Residues in contact with ASN1693 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1586A GLU 4.3 5.9 + - - -
1587A GLY* 3.8 30.1 + - - +
1691A SER* 3.2 8.3 + - - +
1692A ASP* 1.3 82.9 - - - +
1694A VAL* 1.3 59.3 + - - +
1696A LYS* 3.8 15.8 + - - +
1697A LYS* 3.9 8.3 + - - +
1765A ILE* 4.4 8.0 - - - +
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Residues in contact with VAL1694 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1640A VAL* 4.0 21.5 - - + +
1641A SER* 5.3 4.7 - - - -
1686A LYS* 5.6 2.7 - - - +
1690A SER* 3.5 23.6 - - - +
1691A SER* 3.3 25.9 + - - +
1693A ASN* 1.3 76.6 - - - +
1695A LYS* 1.3 59.7 + - - +
1696A LYS 3.3 0.7 - - - -
1697A LYS* 3.3 30.0 + - - +
1698A ILE* 2.9 31.9 + - + +
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Residues in contact with LYS1695 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1687A LEU* 3.6 32.0 - - + +
1690A SER* 4.4 6.5 - - - +
1691A SER 2.7 18.0 + - - +
1692A ASP* 3.6 31.0 - - - +
1693A ASN 3.2 0.2 - - - -
1694A VAL* 1.3 78.1 - - - +
1696A LYS* 1.3 66.2 + - - +
1698A ILE* 3.0 3.4 + - - -
1699A GLU* 2.9 56.8 + - - +
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Residues in contact with LYS1696 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1585A VAL 5.4 0.6 + - - -
1586A GLU* 3.4 44.1 + - + +
1692A ASP 3.5 17.2 + - - +
1693A ASN* 4.0 11.9 - - - +
1694A VAL 3.3 0.2 - - - -
1695A LYS* 1.3 85.2 - - - +
1697A LYS* 1.3 62.0 + - - +
1699A GLU* 4.1 8.7 - - - +
1700A ALA* 3.0 25.5 + - - +
1765A ILE* 3.6 17.7 - - + +
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Residues in contact with LYS1697 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1588A GLU* 4.4 5.9 + - - +
1640A VAL* 3.2 25.8 + - + +
1641A SER 4.4 5.5 + - - -
1643A TYR 2.7 27.0 + - - +
1644A ILE* 4.2 4.2 - - - +
1645A PHE* 3.7 28.9 - - + +
1648A ILE* 4.7 5.2 - - + -
1693A ASN 3.9 1.8 + - - -
1694A VAL* 3.3 26.9 + - - +
1695A LYS 3.2 0.6 - - - -
1696A LYS* 1.3 77.8 - - - +
1698A ILE* 1.3 57.8 + - - +
1700A ALA* 3.3 4.3 - - - +
1701A LEU* 3.0 40.0 + - + +
1765A ILE* 3.7 22.6 - - + +
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Residues in contact with ILE1698 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1640A VAL* 3.5 31.6 - - + -
1683A LEU* 3.3 35.1 - - + +
1686A LYS* 3.8 36.6 - - + +
1687A LEU* 3.5 18.4 - - + -
1690A SER* 4.1 8.7 - - - +
1694A VAL* 2.9 26.7 + - + +
1695A LYS 3.0 3.6 + - - +
1697A LYS* 1.3 75.0 - - - +
1699A GLU* 1.3 65.1 + - - +
1701A LEU* 3.3 7.2 + - - +
1702A LEU* 3.2 22.0 + - + +
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Residues in contact with GLU1699 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1687A LEU* 3.6 17.4 - - + +
1695A LYS* 2.9 50.8 + - - +
1696A LYS* 4.1 7.1 - - - +
1698A ILE* 1.3 75.2 - - - +
1700A ALA* 1.3 63.1 + - - +
1702A LEU* 3.1 14.4 + - - +
1703A VAL* 3.2 18.4 + - - +
1936A ILE* 3.4 32.6 - - + +
1937A MET* 5.5 5.7 - - - +
1978A ARG* 4.6 14.2 + - - +
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Residues in contact with ALA1700 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1645A PHE* 3.4 31.3 - - + -
1696A LYS 3.0 19.4 + - - +
1697A LYS 3.3 7.0 - - - +
1699A GLU* 1.3 77.9 - - - +
1701A LEU* 1.3 60.3 + - - +
1702A LEU 3.4 0.2 + - - -
1703A VAL* 3.5 19.9 + - - +
1704A GLU* 3.7 5.9 + - - +
1765A ILE* 4.2 10.8 - - + -
1766A PRO 4.6 2.7 - - - +
1768A ARG* 4.2 16.6 - - + +
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Residues in contact with LEU1701 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1636A ILE* 5.5 1.1 - - + -
1640A VAL* 3.7 31.0 - - + -
1645A PHE* 3.5 21.1 - - + -
1648A ILE* 3.7 28.5 - - + +
1649A LEU* 4.1 17.9 - - + +
1652A ALA* 5.6 0.9 - - + -
1683A LEU* 5.0 9.2 - - + -
1697A LYS* 3.0 33.6 + - + +
1698A ILE* 3.8 7.0 - - - +
1699A GLU 3.3 0.2 - - - -
1700A ALA* 1.3 73.1 - - - +
1702A LEU* 1.3 60.0 + - - +
1704A GLU* 3.3 7.0 + - + +
1705A TYR* 2.8 44.5 + - + +
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Residues in contact with LEU1702 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1680A ILE* 3.7 32.3 - - + +
1683A LEU* 3.6 30.7 - - + -
1684A LEU* 3.5 31.6 - - + -
1687A LEU* 3.8 10.8 - - + -
1698A ILE* 3.2 16.8 + - + +
1699A GLU 3.1 8.6 + - - +
1701A LEU* 1.3 73.8 - - - +
1703A VAL* 1.3 59.2 + - - +
1704A GLU 3.1 1.8 - - - -
1705A TYR* 4.1 2.0 - - - +
1706A LEU* 2.7 39.6 + - + +
1936A ILE* 3.5 30.5 - - + -
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Residues in contact with VAL1703 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1699A GLU 3.3 16.4 - - - +
1700A ALA* 3.6 9.9 - - - +
1701A LEU 3.3 0.2 - - - -
1702A LEU* 1.3 77.2 - - - +
1704A GLU* 1.3 61.5 + - + +
1706A LEU* 4.0 5.8 + - - +
1707A HIS* 3.6 17.7 + - - +
1768A ARG* 3.8 23.6 - - + +
1769A LEU 3.2 35.0 - - - +
1770A ILE* 4.0 18.2 - - + -
1771A TYR* 4.1 8.7 + - + -
1936A ILE* 3.4 16.8 - - + +
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Residues in contact with GLU1704 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1649A LEU* 3.4 21.3 - - + -
1652A ALA* 6.3 0.9 - - + -
1653A GLN* 3.0 38.6 + - - +
1700A ALA 3.7 7.7 + - - +
1701A LEU* 3.3 9.5 + - + +
1702A LEU 3.1 0.4 - - - -
1703A VAL* 1.3 80.9 - - + +
1705A TYR* 1.3 65.0 + - + +
1706A LEU 3.3 0.2 - - - -
1707A HIS* 3.4 6.9 + - - +
1708A PHE* 3.2 45.9 + - + -
1734A PHE* 5.4 0.3 - - - -
1768A ARG* 3.8 15.4 + - - +
1771A TYR* 2.3 41.3 + - + -
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Residues in contact with TYR1705 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1630A LEU* 5.5 1.0 - - - +
1636A ILE* 3.9 32.0 - - + +
1652A ALA* 3.8 28.9 - - + +
1655A MET* 4.6 8.3 - - - +
1672A TYR* 6.0 0.9 - - - -
1676A VAL* 4.0 18.2 - - + +
1679A LYS* 3.3 44.8 + - + -
1680A ILE* 3.7 20.0 - - + +
1683A LEU* 3.9 15.3 - - + -
1701A LEU* 2.8 32.8 + - + +
1702A LEU* 3.2 6.5 + - - +
1704A GLU* 1.3 72.3 - - + +
1706A LEU* 1.3 65.8 + - - +
1708A PHE* 3.1 28.3 + + - +
1709A ASN 3.1 16.6 + - - -
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Residues in contact with LEU1706 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1680A ILE* 3.9 32.5 - - + +
1702A LEU* 2.7 28.6 + - + +
1703A VAL* 4.0 5.6 - - - +
1705A TYR* 1.3 72.8 - - - +
1707A HIS* 1.3 56.7 + - - +
1709A ASN* 2.9 10.8 + - + +
1710A ASN* 2.8 28.5 + - - +
1932A MET* 3.7 44.1 - - + +
1935A GLN* 4.2 22.7 - - + +
1936A ILE* 4.0 26.0 - - + -
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Residues in contact with HIS1707 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1656A TRP* 4.1 9.9 - + - -
1703A VAL 3.6 5.0 + - - +
1704A GLU* 3.4 10.0 + - - +
1705A TYR 3.3 0.8 - - - -
1706A LEU* 1.3 74.5 - - - +
1708A PHE* 1.3 76.4 + - - +
1710A ASN* 4.1 14.8 - - - +
1711A VAL* 3.0 43.4 + - + +
1731A VAL* 3.4 29.7 - - + +
1732A GLN* 5.2 0.9 - - + -
1771A TYR* 3.4 65.1 - + + -
1776A LEU* 4.3 9.9 - - + +
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Residues in contact with PHE1708 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1652A ALA* 3.7 41.1 - - + -
1653A GLN* 3.9 11.2 - - + -
1656A TRP* 3.5 56.1 - + + +
1672A TYR* 5.5 0.9 - - - -
1676A VAL* 4.6 8.1 - - + -
1704A GLU* 3.2 38.8 + - + -
1705A TYR* 3.3 35.9 - + - +
1706A LEU 3.1 0.6 - - - -
1707A HIS* 1.3 82.3 - - - +
1709A ASN* 1.3 63.8 + - - +
1711A VAL* 3.9 0.9 - - - +
1712A ILE* 3.0 32.5 + - + +
1734A PHE* 6.4 0.4 - + - -
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Residues in contact with ASN1709 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1673A TRP* 3.3 62.3 + - - +
1676A VAL* 3.9 10.4 - - + +
1677A ASP* 4.0 13.1 + - - -
1680A ILE* 3.6 29.4 - - + +
1705A TYR 3.1 1.8 + - - -
1706A LEU* 2.9 14.6 + - + +
1708A PHE* 1.3 81.1 - - - +
1710A ASN* 1.3 55.9 + - - +
1712A ILE* 4.9 2.5 - - - -
1713A GLY* 2.9 23.9 + - - -
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Residues in contact with ASN1710 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1706A LEU 2.8 15.7 + - - +
1707A HIS* 3.6 20.5 - - - +
1709A ASN* 1.3 77.4 - - - +
1711A VAL* 1.3 51.7 + - - +
1713A GLY* 3.3 2.0 + - - -
1714A GLN* 2.7 55.1 + - - +
1771A TYR* 5.0 9.5 + - - +
1773A PRO* 6.0 4.0 - - - +
1932A MET* 5.1 13.0 - - + -
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Residues in contact with VAL1711 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1656A TRP* 4.0 18.8 - - + -
1660A VAL* 5.3 0.2 - - + -
1707A HIS* 3.0 49.3 + - + +
1708A PHE 3.9 2.9 - - - +
1710A ASN* 1.3 74.4 - - + +
1712A ILE* 1.3 55.9 + - - +
1713A GLY 3.0 1.6 - - - -
1714A GLN* 2.9 13.7 + - - +
1715A LEU* 2.7 47.4 + - + +
1727A LEU* 4.6 8.3 - - + -
1728A TRP* 4.0 19.5 - - + -
1731A VAL* 4.2 14.4 - - + -
1776A LEU* 5.8 0.7 - - + -
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Residues in contact with ILE1712 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1656A TRP* 3.9 15.3 - - - +
1660A VAL* 4.5 10.1 - - + -
1663A CYS* 5.4 0.2 - - - -
1669A PHE* 3.8 36.7 - - + +
1672A TYR* 3.6 38.8 - - + +
1673A TRP* 3.8 14.8 - - + +
1676A VAL* 3.9 21.8 - - + -
1708A PHE 3.0 19.2 + - - +
1709A ASN* 4.0 3.6 - - - +
1711A VAL* 1.3 75.6 - - - +
1713A GLY* 1.3 56.8 + - - +
1715A LEU* 3.7 8.5 - - - +
1716A LYS* 2.9 28.6 + - - +
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Residues in contact with GLY1713 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1673A TRP* 3.3 24.4 - - - -
1709A ASN 2.9 11.4 + - - -
1710A ASN* 3.5 5.4 - - - -
1712A ILE* 1.3 75.9 - - - +
1714A GLN* 1.3 63.1 + - - +
1716A LYS* 3.4 12.5 + - - +
1717A ASN* 2.9 25.3 + - - +
----------------------------------------------------------
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Residues in contact with GLN1714 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1710A ASN* 2.7 47.5 + - - +
1711A VAL* 2.9 12.1 + - - +
1713A GLY* 1.3 73.8 - - - +
1715A LEU* 1.3 63.5 + - - +
1717A ASN* 3.3 5.1 + - - +
1718A CYS* 3.3 24.5 + - - -
1727A LEU* 3.4 37.6 - - + +
1773A PRO* 5.6 8.1 - - - +
1776A LEU* 6.1 3.6 - - - +
----------------------------------------------------------
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Residues in contact with LEU1715 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1660A VAL* 3.5 32.5 - - + -
1664A LEU* 4.0 9.6 - - + -
1669A PHE* 3.5 29.9 - - + -
1711A VAL* 2.7 28.4 + - + +
1712A ILE* 3.7 3.1 - - - +
1714A GLN* 1.3 70.5 - - - +
1716A LYS* 1.3 67.0 + - - +
1718A CYS* 3.4 17.8 + - - +
1724A ALA* 3.2 45.3 - - + +
1727A LEU* 3.9 14.1 - - + -
1728A TRP* 4.0 17.3 - - + +
----------------------------------------------------------
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Residues in contact with LYS1716 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1669A PHE* 4.0 26.1 - - + -
1670A SER* 4.9 11.2 - - - +
1673A TRP* 4.1 46.4 - - - +
1712A ILE 2.9 15.0 + - - +
1713A GLY* 3.6 6.0 - - - +
1714A GLN 3.2 0.2 - - - -
1715A LEU* 1.3 80.0 - - - +
1717A ASN* 1.3 78.8 + - - +
1718A CYS 3.2 9.5 + - - +
----------------------------------------------------------
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Residues in contact with ASN1717 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1713A GLY* 2.9 19.8 + - - +
1714A GLN* 3.3 7.2 + - - +
1716A LYS* 1.3 94.5 + - - +
1718A CYS* 1.3 66.6 + - - +
1719A SER* 3.5 3.1 + - - -
----------------------------------------------------------
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Residues in contact with CYS1718 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1714A GLN 3.3 19.5 + - - -
1715A LEU* 3.5 16.1 - - - +
1716A LYS 3.2 8.8 - - - +
1717A ASN* 1.3 78.5 - - - +
1719A SER* 1.3 67.7 + - - +
1720A THR 4.1 14.7 - - - +
1723A GLU* 4.0 11.9 - - + -
1724A ALA* 3.8 26.9 - - + +
1727A LEU* 4.1 16.6 - - - -
----------------------------------------------------------
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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