Contacts of the helix formed by residues 1756 - 1783 (chain A) in PDB entry 2KBB
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 PRO1756 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1755A HIS* 1.4 90.0 - - + +
1757A GLN* 1.3 51.9 + - + +
1758A GLN* 3.0 4.7 - - - +
1759A MET* 3.0 11.1 + - + +
1760A ALA* 2.8 36.5 + - + +
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Residues in contact with GLN1757 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1752A THR* 5.0 0.2 - - + -
1755A HIS* 2.8 20.6 + - + +
1756A PRO* 1.3 78.0 - - + +
1758A GLN* 1.3 62.0 + - - +
1760A ALA* 4.0 4.9 - - - +
1761A LEU* 3.0 26.9 + - + +
1813A THR* 3.2 33.3 + - + +
1816A GLU* 4.2 11.9 - - - +
1817A ALA* 5.0 4.0 - - + -
1820A ALA* 3.5 40.4 - - + +
1821A ALA* 5.0 7.9 - - + -
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Residues in contact with GLN1758 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1682A ALA* 4.4 8.3 + - - +
1748A ALA 3.6 6.1 - - - +
1749A ALA* 2.7 36.3 + - - +
1752A THR* 3.2 35.1 + - - +
1753A LEU* 5.3 8.3 - - - +
1755A HIS 3.1 14.3 + - - +
1756A PRO* 5.0 2.3 - - - +
1757A GLN* 1.3 79.9 - - - +
1759A MET* 1.3 95.8 + - + +
1761A LEU* 3.7 8.7 - - - +
1762A LEU* 3.2 21.3 + - - +
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Residues in contact with MET1759 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1679A SER* 3.7 20.6 - - - +
1682A ALA* 3.9 13.9 - - + +
1683A VAL* 3.6 39.9 - - + +
1756A PRO* 3.0 9.2 + - + +
1758A GLN* 1.3 98.5 + - - +
1760A ALA* 1.3 60.2 + - - +
1762A LEU* 3.5 21.5 - - - +
1763A ASP* 2.9 32.9 + - - +
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Residues in contact with ALA1760 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1756A PRO* 2.8 18.9 + - + +
1757A GLN* 3.6 10.3 - - - +
1758A GLN 3.3 0.2 - - - -
1759A MET* 1.3 78.2 - - - +
1761A LEU* 1.3 57.5 + - - +
1763A ASP* 3.7 4.0 - - - +
1764A GLN* 2.8 40.6 + - - +
1813A THR* 3.8 17.0 - - + +
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Residues in contact with LEU1761 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1695A GLN* 6.2 0.9 - - - +
1698A LEU* 6.4 0.4 - - + -
1702A MET* 3.8 20.6 - - + -
1745A ALA* 3.9 7.6 - - - +
1748A ALA* 3.4 33.4 - - + -
1752A THR* 5.5 2.0 - - - +
1757A GLN* 3.0 24.5 + - + +
1758A GLN* 3.7 4.7 - - - +
1760A ALA* 1.3 74.1 - - - +
1762A LEU* 1.3 62.6 + - - +
1764A GLN* 3.4 9.6 - - - -
1765A THR* 2.6 38.5 + - - -
1810A LEU* 3.0 12.0 - - + +
1813A THR* 3.7 18.4 - - + -
1814A LEU* 4.0 17.7 - - + -
1817A ALA* 4.7 13.5 - - + -
1821A ALA* 6.0 1.6 - - + -
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Residues in contact with LEU1762 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1675A LEU* 4.0 14.0 - - + +
1678A ALA* 3.8 18.2 - - + +
1679A SER* 3.4 37.7 - - - +
1745A ALA* 3.6 28.7 - - - +
1749A ALA* 3.4 23.3 - - + -
1758A GLN 3.2 18.5 + - - +
1759A MET* 3.5 21.5 - - + +
1761A LEU* 1.3 85.5 - - - +
1763A ASP* 1.3 62.6 + - - +
1765A THR* 3.6 2.8 + - - -
1766A LYS* 3.3 18.2 + - - +
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Residues in contact with ASP1763 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1679A SER* 5.8 4.7 - - - +
1759A MET 2.9 18.2 + - - +
1760A ALA* 3.7 4.2 - - - +
1762A LEU* 1.3 76.5 - - - +
1764A GLN* 1.3 57.6 + - - +
1766A LYS* 3.0 18.0 + - - +
1767A THR* 2.7 47.0 + - - -
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Residues in contact with GLN1764 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1760A ALA* 2.8 31.1 + - - +
1761A LEU* 3.4 5.7 - - - -
1763A ASP* 1.3 75.2 - - - +
1765A THR* 1.3 54.5 + - - +
1767A THR* 3.4 10.1 - - - -
1768A LEU* 2.7 35.7 + - - +
1806A ALA* 4.6 3.0 - - + +
1809A ASP* 2.9 46.0 + - + +
1810A LEU* 3.1 28.8 - - + +
1812A THR* 5.7 0.2 - - - -
1813A THR* 2.6 34.3 + - - -
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Residues in contact with THR1765 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1675A LEU* 3.8 12.3 - - + -
1702A MET* 3.1 21.1 - - - +
1738A PHE* 4.6 2.6 - - + +
1741A LEU* 3.5 46.2 - - + +
1742A THR* 4.0 0.7 - - - +
1745A ALA* 3.3 11.4 - - + +
1761A LEU 2.6 26.2 + - - -
1762A LEU 3.8 2.0 - - - -
1764A GLN* 1.3 75.0 - - - +
1766A LYS* 1.3 53.5 + - - +
1768A LEU* 3.3 4.2 + - - +
1769A ALA* 2.8 34.6 + - + +
1810A LEU* 3.2 10.3 - - - +
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Residues in contact with LYS1766 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1672A LEU* 3.6 15.3 - - + -
1675A LEU* 3.5 21.0 - - + +
1676A ASP* 3.8 46.2 - - - +
1679A SER* 6.0 2.9 - - - -
1762A LEU 3.3 10.6 + - - +
1763A ASP* 3.0 19.1 + - - +
1765A THR* 1.3 77.4 - - - +
1767A THR* 1.3 54.7 + - - +
1769A ALA* 3.1 2.1 + - - +
1770A GLU* 2.7 70.6 + - - +
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Residues in contact with THR1767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1763A ASP* 2.7 36.2 + - - -
1764A GLN* 3.4 11.9 - - - +
1766A LYS* 1.3 74.1 - - - +
1768A LEU* 1.3 52.4 + - - +
1770A GLU* 3.2 13.6 + - - +
1771A SER* 2.7 41.1 + - - +
1802A MET* 4.5 10.4 - - + +
1806A ALA* 4.4 10.5 - - + -
1809A ASP* 5.7 4.5 - - - +
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Residues in contact with LEU1768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1706A VAL* 4.5 12.6 - - + -
1709A ILE* 4.5 3.6 - - + -
1738A PHE* 3.4 26.7 - - + -
1741A LEU* 4.2 17.9 - - + -
1764A GLN 2.7 19.9 + - - +
1765A THR* 3.6 5.2 - - - +
1767A THR* 1.3 73.3 - - - +
1769A ALA* 1.3 52.0 + - - +
1771A SER* 3.2 6.0 - - - -
1772A ALA* 2.8 30.0 + - - +
1803A MET* 3.4 41.1 - - + +
1806A ALA* 3.7 13.9 - - + +
1807A VAL* 3.9 19.7 - - + +
1810A LEU* 4.5 9.0 - - + -
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Residues in contact with ALA1769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1668A LEU* 3.7 2.8 - - + +
1671A CYS* 4.2 6.7 - - - -
1672A LEU* 3.5 26.3 - - + +
1675A LEU* 4.2 9.6 - - + -
1738A PHE* 3.4 20.4 - - + -
1765A THR 2.8 18.7 + - - +
1766A LYS* 3.4 7.6 - - - +
1768A LEU* 1.3 77.4 - - - +
1770A GLU* 1.3 52.3 + - - +
1772A ALA* 3.3 3.2 + - - +
1773A LEU* 2.7 34.5 + - - +
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Residues in contact with GLU1770 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1672A LEU* 3.3 17.0 - - + -
1766A LYS* 2.7 56.7 + - - +
1767A THR* 3.5 10.4 + - + +
1769A ALA* 1.3 70.0 - - - +
1771A SER* 1.3 60.5 + - - +
1773A LEU* 3.5 9.6 - - + +
1774A GLN* 2.8 31.7 + - - +
1802A MET* 4.8 8.5 - - + -
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Residues in contact with SER1771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1767A THR* 2.7 24.4 + - - +
1768A LEU* 3.2 12.4 - - - -
1770A GLU* 1.3 77.6 - - - +
1772A ALA* 1.3 55.9 + - - +
1774A GLN* 3.4 3.1 + - - +
1775A LEU* 2.9 26.7 + - - +
1799A ALA* 4.3 4.3 - - - +
1802A MET* 3.2 43.4 + - - +
1803A MET* 3.6 25.7 - - - +
1806A ALA* 4.1 2.6 - - - +
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Residues in contact with ALA1772 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1668A LEU* 3.4 14.6 - - + -
1734A MET* 4.0 6.3 - - - -
1738A PHE* 3.4 35.0 - - + -
1768A LEU 2.8 10.3 + - - +
1769A ALA 3.6 4.5 - - - +
1771A SER* 1.3 71.0 - - - +
1773A LEU* 1.3 57.1 + - - +
1775A LEU* 3.2 8.8 - - - +
1776A LEU* 2.6 39.2 + - - +
1803A MET* 3.4 12.5 - - + +
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Residues in contact with LEU1773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1665A ILE* 3.8 31.2 - - + +
1668A LEU* 3.2 21.1 - - + +
1669A ASN* 4.0 16.8 - - + +
1672A LEU* 4.4 17.5 - - + -
1769A ALA 2.7 21.6 + - - +
1770A GLU* 3.2 10.3 + - + +
1772A ALA* 1.3 70.0 - - - +
1774A GLN* 1.3 56.1 + - - +
1776A LEU* 3.2 2.4 + - - +
1777A TYR* 2.7 68.5 + - + +
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Residues in contact with GLN1774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1770A GLU 2.8 19.8 + - - +
1771A SER* 3.6 7.0 - - - +
1773A LEU* 1.3 72.6 - - - +
1775A LEU* 1.3 57.2 + - - +
1777A TYR* 3.5 14.2 - - - +
1778A THR* 2.8 47.7 + - + +
1795A ALA* 4.9 6.8 - - - +
1798A GLU* 6.5 0.2 - - + -
1799A ALA* 4.0 16.2 - - + -
1802A MET* 4.8 10.3 - - - -
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Residues in contact with LEU1775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1713A ILE* 5.2 1.3 - - + -
1716A LEU* 3.4 32.8 - - + -
1717A ALA* 5.6 2.2 - - - +
1734A MET* 3.7 18.6 - - + -
1771A SER 2.9 15.5 + - - +
1772A ALA* 3.2 13.7 - - - +
1774A GLN* 1.3 75.1 - - - +
1776A LEU* 1.3 64.7 + - + +
1778A THR* 2.9 4.9 + - - -
1779A ALA* 2.8 31.1 + - + +
1796A LEU* 3.9 17.0 - - + +
1799A ALA* 3.7 19.7 - - + +
1800A VAL* 3.8 21.8 - - + +
1803A MET* 3.7 15.7 - - - -
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Residues in contact with LEU1776 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1661A CYS* 3.6 8.0 - - - +
1664A ALA* 3.7 32.8 - - + +
1665A ILE* 3.6 16.7 - - + +
1668A LEU* 3.4 25.4 - - + -
1716A LEU* 4.7 0.4 - - + -
1731A VAL* 3.8 33.0 - - + -
1734A MET* 4.1 21.8 - - + -
1735A ALA* 5.0 7.6 - - + -
1772A ALA 2.6 20.0 + - - +
1773A LEU 3.8 2.0 - - - +
1775A LEU* 1.3 77.3 - - + +
1777A TYR* 1.3 58.1 + - - +
1779A ALA* 4.1 3.8 - - + -
1780A LYS* 2.9 30.1 + - - +
----------------------------------------------------------
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Residues in contact with TYR1777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1665A ILE* 3.7 31.0 - - + +
1669A ASN* 4.3 11.4 + - - -
1773A LEU* 2.7 63.4 + - + +
1774A GLN* 3.5 19.5 - - - +
1776A LEU* 1.3 72.9 - - - +
1778A THR* 1.3 62.1 + - + +
1780A LYS* 3.3 18.4 + - - +
1781A GLU* 3.4 25.1 + - - +
----------------------------------------------------------
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Residues in contact with THR1778 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1774A GLN* 2.8 32.3 + - - +
1775A LEU* 2.9 13.7 + - - -
1777A TYR* 1.3 74.6 - - + +
1779A ALA* 1.3 58.6 + - - +
1781A GLU* 3.2 6.1 + - - +
1782A ALA* 3.0 27.4 + - - +
1792A THR* 3.2 20.4 - - + +
1795A ALA* 3.7 35.2 - - + +
1796A LEU* 3.4 26.2 - - - +
1799A ALA* 3.9 1.6 - - - +
----------------------------------------------------------
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Residues in contact with ALA1779 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1661A CYS* 3.8 14.8 - - - -
1716A LEU* 4.2 9.0 - - + -
1720A ALA* 3.7 28.3 - - + -
1727A LEU* 3.8 11.0 - - + +
1775A LEU* 2.8 19.2 + - + +
1776A LEU* 3.7 8.7 - - + +
1778A THR* 1.3 74.3 + - - +
1780A LYS* 1.3 60.1 + - - +
1783A GLY* 2.8 30.5 + - - +
1796A LEU* 4.0 1.0 - - + +
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Residues in contact with LYS1780 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1650A ILE 5.2 0.2 - - - +
1652A PRO* 4.9 11.5 - - - +
1653A PHE* 3.4 22.9 - - - -
1658A GLN* 2.9 55.3 + - + +
1661A CYS* 3.6 12.8 - - + -
1662A GLU* 2.7 48.4 + - + +
1665A ILE* 4.3 9.2 - - + +
1776A LEU 2.9 17.3 + - - +
1777A TYR* 3.4 13.4 - - - +
1778A THR 3.2 0.4 - - - -
1779A ALA* 1.3 77.1 - - - +
1781A GLU* 1.3 61.4 + - - +
----------------------------------------------------------
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Residues in contact with GLU1781 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1653A PHE* 3.3 47.0 - - + +
1658A GLN* 3.7 1.4 + - - -
1777A TYR* 3.4 20.8 + - - +
1778A THR* 3.2 6.2 + - - +
1780A LYS* 1.3 82.8 - - + +
1782A ALA* 1.3 61.7 + - - +
1783A GLY 3.5 0.5 + - - -
1785A ASN* 4.3 3.8 - - - +
1788A GLN 5.0 0.4 - - - +
1789A ALA* 4.0 5.4 - - + +
1792A THR* 2.7 44.9 + - + +
----------------------------------------------------------
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Residues in contact with ALA1782 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1720A ALA 2.8 16.1 - - - +
1721A ARG* 4.2 1.9 - - - -
1778A THR 3.0 15.3 + - - +
1779A ALA* 5.0 0.2 - - - -
1781A GLU* 1.3 76.5 - - - +
1783A GLY* 1.3 54.0 + - - +
1785A ASN 2.7 32.4 + - - +
1789A ALA* 3.4 15.0 - - + -
1792A THR* 3.7 7.2 - - + -
1793A GLN* 3.5 26.7 - - - +
1796A LEU* 4.3 10.3 - - + -
----------------------------------------------------------
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Residues in contact with GLY1783 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1655A ALA* 3.2 8.2 - - - +
1658A GLN* 2.8 30.8 + - - +
1720A ALA 2.9 8.0 + - - -
1724A ALA* 4.7 1.8 - - - -
1727A LEU* 3.5 17.3 - - - -
1779A ALA 2.8 21.6 + - - -
1781A GLU 3.3 3.2 - - - -
1782A ALA* 1.3 72.6 - - - +
1784A GLY* 1.3 59.1 + - - -
1785A ASN* 3.1 5.8 + - - +
----------------------------------------------------------
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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
------------------------------------------------------------
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