Contacts of the helix formed by residues 1724 - 1752 (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 ALA1724 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1655A ALA* 4.0 4.0 - - + -
1656A PRO* 3.0 50.9 - - + +
1722A ALA 2.8 8.3 + - - +
1723A GLU* 1.3 73.5 - - - +
1725A SER* 1.3 63.3 + - - +
1726A GLN 3.3 0.7 + - - -
1727A LEU* 3.4 12.0 + - - +
1728A GLY* 3.8 3.1 + - - -
1784A GLY* 3.7 24.2 - - - +
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Residues in contact with SER1725 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1656A PRO* 4.4 16.1 - - - +
1723A GLU* 5.1 0.5 - - - -
1724A ALA* 1.3 78.4 + - - +
1726A GLN* 1.3 69.0 + - - +
1728A GLY* 4.5 2.6 + - - -
1729A HIS* 3.2 25.5 + - - -
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Residues in contact with GLN1726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1723A GLU* 3.4 47.7 + - + +
1724A ALA 3.1 0.4 - - - -
1725A SER* 1.3 88.3 + - - +
1727A LEU* 1.3 65.4 + - - +
1728A GLY 3.3 1.8 - - - -
1729A HIS* 2.9 18.3 + - - +
1730A LYS* 3.1 28.2 + - - +
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Residues in contact with LEU1727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1656A PRO 4.4 0.9 - - - +
1657A GLY* 3.9 14.4 - - - -
1661A CYS* 3.8 10.8 - - - -
1716A LEU* 3.7 23.1 - - + -
1719A ALA* 3.5 11.2 - - + +
1720A ALA* 3.6 24.9 - - + +
1723A GLU 2.8 20.0 + - - +
1724A ALA 3.4 5.1 + - - +
1726A GLN* 1.3 75.8 - - - +
1728A GLY* 1.3 62.7 + - - +
1730A LYS* 2.9 14.6 + - - +
1731A VAL* 2.9 27.6 + - + +
1779A ALA* 3.8 12.8 - - + +
1783A GLY* 3.5 33.4 - - - -
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Residues in contact with GLY1728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1657A GLY* 4.3 3.5 - - - -
1660A GLU* 3.6 34.3 - - - +
1724A ALA 3.8 6.7 + - - -
1725A SER 4.5 1.7 + - - -
1726A GLN 3.3 1.2 - - - -
1727A LEU* 1.3 79.1 - - - +
1729A HIS* 1.3 58.3 + - - +
1731A VAL* 3.4 4.0 + - - +
1732A SER* 2.8 33.3 + - - -
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Residues in contact with HIS1729 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1725A SER 3.2 22.8 + - - -
1726A GLN* 2.9 14.0 + - - +
1728A GLY* 1.3 74.8 - - - +
1730A LYS* 1.3 68.1 + - + +
1732A SER* 3.6 9.0 + - - -
1733A GLN* 3.3 35.4 + - - +
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Residues in contact with LYS1730 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1712A LEU* 3.3 14.5 - - + +
1715A PRO* 2.8 39.0 + - + +
1716A LEU* 3.4 28.7 - - + +
1719A ALA* 3.5 6.7 - - + +
1723A GLU* 2.7 25.7 + - - -
1726A GLN* 3.2 36.1 - - - +
1727A LEU* 2.9 13.2 + - - +
1729A HIS* 1.3 79.0 - - + +
1731A VAL* 1.3 61.8 + - - +
1733A GLN* 3.1 13.1 + - - +
1734A MET 2.9 24.4 + - - -
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Residues in contact with VAL1731 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1660A GLU* 3.4 29.2 - - + +
1661A CYS* 3.7 27.6 - - - +
1664A ALA* 3.4 18.2 - - + -
1716A LEU* 4.0 12.3 - - + -
1727A LEU* 2.9 30.9 + - + +
1728A GLY* 3.6 8.3 - - - +
1729A HIS 3.3 0.2 - - - -
1730A LYS* 1.3 76.1 - - - +
1732A SER* 1.3 63.3 + - - +
1734A MET* 3.8 2.3 - - - +
1735A ALA* 3.0 24.6 + - - +
1776A LEU* 3.8 13.9 - - + -
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Residues in contact with SER1732 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1660A GLU* 4.1 11.5 + - - +
1728A GLY 2.8 21.4 + - - -
1729A HIS* 3.6 11.9 - - - -
1731A VAL* 1.3 77.3 - - - +
1733A GLN* 1.3 62.7 + - - +
1735A ALA* 4.3 3.0 - - - +
1736A GLN* 3.4 27.5 + - - +
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Residues in contact with GLN1733 (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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1712A LEU* 3.6 27.3 - - + +
1729A HIS* 3.3 25.2 + - - +
1730A LYS* 3.1 15.8 + - - +
1732A SER* 1.3 76.8 - - - +
1734A MET* 1.3 62.1 + - - +
1736A GLN* 2.9 25.8 - - - +
1737A TYR* 2.9 32.0 + - + +
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Residues in contact with MET1734 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1668A LEU* 6.2 0.2 - - + -
1709A ILE* 4.4 3.1 - - + -
1712A LEU* 3.4 27.1 - - + +
1713A ILE* 3.8 14.4 - - + -
1716A LEU* 3.4 29.2 - - + -
1730A LYS 2.9 9.6 + - - +
1731A VAL* 3.9 4.0 - - - +
1733A GLN* 1.3 77.1 - - - +
1735A ALA* 1.3 62.1 + - - +
1736A GLN 3.4 0.2 + - - -
1737A TYR* 3.5 7.4 + - - +
1738A PHE* 3.0 40.6 - - + -
1772A ALA* 4.0 9.0 - - + -
1775A LEU* 3.7 18.2 - - + -
1776A LEU* 4.1 12.3 - - + -
1803A MET* 3.5 36.8 - - + +
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Residues in contact with ALA1735 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1664A ALA* 3.9 29.2 - - + +
1667A ALA* 5.4 7.1 - - + +
1668A LEU* 5.6 6.4 - - + +
1731A VAL 3.0 16.4 + - - +
1732A SER* 4.3 3.1 - - - +
1734A MET* 1.3 78.1 - - - +
1736A GLN* 1.3 62.2 + - - +
1738A PHE* 3.3 16.5 + - - +
1739A GLU* 3.6 10.0 + - - +
1776A LEU* 5.0 6.5 - - + -
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Residues in contact with GLN1736 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1732A SER* 3.4 17.1 + - - +
1733A GLN* 2.9 29.6 + - - +
1735A ALA* 1.3 80.9 - - - +
1737A TYR* 1.3 87.8 + - + +
1739A GLU* 3.4 7.0 + - - +
1740A PRO* 2.9 24.8 - - - +
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Residues in contact with TYR1737 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1705A ALA* 4.0 17.9 - - + +
1708A GLU* 3.9 32.0 + - + +
1709A ILE* 3.4 29.4 - - + -
1712A LEU* 3.6 24.7 - - + -
1733A GLN* 2.9 32.6 + - + +
1734A MET* 4.0 1.6 - - - +
1735A ALA 3.3 0.6 - - - -
1736A GLN* 1.3 101.2 + - + +
1738A PHE* 1.3 63.4 + - - +
1739A GLU 3.2 0.2 - - - -
1740A PRO* 3.2 20.2 - - + +
1741A LEU* 3.4 14.4 + - - +
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Residues in contact with PHE1738 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1668A LEU* 4.0 19.3 - - + -
1671A CYS* 4.8 2.9 - - - -
1709A ILE* 3.4 31.0 - - + -
1734A MET* 3.0 25.6 - - + +
1735A ALA* 3.3 9.3 + - - +
1736A GLN 3.2 0.6 - - - -
1737A TYR* 1.3 75.7 - - - +
1739A GLU* 1.3 60.9 + - - +
1741A LEU* 3.5 12.7 - - + +
1742A THR* 2.9 34.8 + - - -
1765A THR* 4.6 2.9 - - + -
1768A LEU* 3.4 47.3 - - + -
1769A ALA* 3.4 24.9 - - + -
1772A ALA* 3.4 18.2 - - + -
1803A MET* 3.5 13.2 - - + -
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Residues in contact with GLU1739 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1671A CYS* 5.4 4.5 - - - -
1735A ALA 3.6 7.7 + - - +
1736A GLN* 3.4 8.0 + - - +
1737A TYR 3.2 0.2 - - - -
1738A PHE* 1.3 77.0 - - - +
1740A PRO* 1.4 72.7 - - + +
1742A THR* 3.1 9.9 + - - -
1743A LEU* 3.0 40.2 + - + +
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Residues in contact with PRO1740 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1701A GLN* 3.4 27.1 - - + +
1705A ALA* 5.0 7.0 - - + -
1736A GLN 2.9 27.1 - - - +
1737A TYR* 3.2 18.4 - - + +
1739A GLU* 1.4 85.6 - - + +
1741A LEU* 1.3 51.4 + - - +
1743A LEU* 4.1 14.4 - - + -
1744A ALA* 2.6 38.9 + - - +
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Residues in contact with LEU1741 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1702A MET* 3.4 56.3 - - + +
1705A ALA* 4.0 6.3 - - + +
1706A VAL* 3.8 15.9 - - + -
1709A ILE* 3.4 32.1 - - + -
1737A TYR 3.4 10.7 + - - +
1738A PHE* 3.5 16.8 - - + +
1739A GLU 3.2 1.0 - - - -
1740A PRO* 1.3 77.9 - - - +
1742A THR* 1.3 53.6 + - - +
1744A ALA* 3.8 1.6 - - - +
1745A ALA* 2.7 37.1 + - - +
1765A THR* 3.5 12.1 - - + +
1768A LEU* 4.2 11.9 - - + -
1810A LEU* 4.3 4.3 - - + -
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Residues in contact with THR1742 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1671A CYS* 3.1 36.1 - - + +
1674A ASP* 3.8 25.6 - - + +
1675A LEU* 3.6 32.0 - - + +
1738A PHE* 2.9 15.4 + - - -
1739A GLU* 3.3 9.4 - - - -
1741A LEU* 1.3 75.0 - - - +
1743A LEU* 1.3 60.7 + - + +
1745A ALA* 3.6 0.7 - - - +
1746A VAL* 2.8 34.3 + - - +
1765A THR* 4.0 1.8 - - - +
1769A ALA* 5.5 0.3 - - - +
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Residues in contact with LEU1743 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1674A ASP* 5.6 6.3 - - - +
1691A GLU* 3.7 42.3 - - + +
1701A GLN* 5.1 0.7 - - - +
1739A GLU* 3.0 35.6 + - + +
1740A PRO* 3.6 14.1 - - + +
1742A THR* 1.3 81.4 - - + +
1744A ALA* 1.3 59.0 + - - +
1746A VAL* 3.4 5.9 + - - +
1747A GLY* 2.8 26.7 + - - -
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Residues in contact with ALA1744 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1691A GLU* 5.1 3.1 - - - -
1698A LEU* 3.2 24.0 - - + +
1701A GLN* 3.2 19.7 + - + +
1702A MET* 3.3 29.8 - - + -
1740A PRO 2.6 22.6 + - - +
1741A LEU 3.8 0.9 - - - +
1743A LEU* 1.3 73.1 - - - +
1745A ALA* 1.3 57.0 + - - +
1747A GLY 3.2 0.7 + - - -
1748A ALA* 2.8 26.9 + - - +
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Residues in contact with ALA1745 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1675A LEU* 3.7 9.4 - - + -
1702A MET* 3.8 3.3 - - + -
1741A LEU 2.7 22.2 + - - +
1742A THR 3.6 3.4 - - - +
1744A ALA* 1.3 71.6 - - - +
1746A VAL* 1.3 60.0 + - - +
1748A ALA* 3.2 2.6 + - - +
1749A ALA* 2.8 28.9 + - - +
1761A LEU* 3.9 12.3 - - + +
1762A LEU* 3.6 15.1 - - - +
1765A THR* 3.3 30.3 - - - +
----------------------------------------------------------
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Residues in contact with VAL1746 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1674A ASP* 3.3 25.8 - - - +
1675A LEU* 3.8 11.4 - - + -
1678A ALA* 3.5 25.4 - - + -
1687A LEU* 3.5 32.9 - - + +
1690A ARG* 4.8 1.1 - - - -
1742A THR 2.8 23.4 + - - +
1743A LEU* 3.7 5.6 - - - +
1745A ALA* 1.3 75.5 - - - +
1747A GLY* 1.3 64.4 + - - +
1749A ALA* 3.2 7.7 - - - +
1750A SER 3.2 15.9 + - - -
1762A LEU* 4.1 1.8 - - - -
----------------------------------------------------------
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Residues in contact with GLY1747 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1690A ARG* 3.1 35.9 + - - +
1698A LEU* 4.3 3.1 - - - -
1743A LEU 2.8 14.9 + - - -
1744A ALA 3.4 4.3 - - - -
1745A ALA 3.1 0.2 - - - -
1746A VAL* 1.3 78.9 - - - +
1748A ALA* 1.3 56.3 + - - +
1750A SER 3.2 0.2 + - - -
1751A LYS* 2.8 34.9 + - - +
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Residues in contact with ALA1748 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1695A GLN* 4.9 0.7 - - - +
1698A LEU* 3.6 24.4 - - + +
1702A MET* 4.9 0.4 - - - -
1744A ALA 2.8 15.9 + - - +
1745A ALA 3.6 0.2 - - - +
1747A GLY* 1.3 72.2 - - - +
1749A ALA* 1.3 58.9 + - - +
1752A THR* 2.8 43.8 + - - +
1758A GLN* 3.6 3.8 - - - +
1761A LEU* 3.4 39.5 - - + -
----------------------------------------------------------
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Residues in contact with ALA1749 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1678A ALA* 4.8 2.5 - - + +
1682A ALA* 3.9 12.6 - - + +
1687A LEU* 5.4 0.7 - - + -
1745A ALA 2.8 12.2 + - - +
1746A VAL* 3.2 12.8 - - + +
1748A ALA* 1.3 75.9 - - - +
1750A SER* 1.3 61.3 + - - +
1752A THR 3.8 1.2 - - - +
1758A GLN* 2.7 43.2 + - - +
1762A LEU* 3.4 35.7 - - + -
----------------------------------------------------------
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Residues in contact with SER1750 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1682A ALA* 4.5 4.9 - - - +
1687A LEU* 2.8 42.8 + - - +
1688A ALA 3.2 26.5 - - - -
1689A PRO* 3.3 11.0 - - - +
1746A VAL 3.2 2.2 + - - -
1747A GLY 3.2 2.4 + - - -
1749A ALA* 1.3 80.4 - - - +
1751A LYS* 1.3 60.9 + - - +
1752A THR 5.0 1.0 - - - +
1753A LEU* 5.8 1.6 - - - +
----------------------------------------------------------
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Residues in contact with LYS1751 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1689A PRO* 4.6 10.7 - - + +
1690A ARG* 3.6 31.1 - - + +
1693A ILE 3.7 12.2 + - - +
1694A SER* 3.7 3.6 - - - +
1695A GLN* 3.6 39.1 - - - +
1698A LEU* 4.4 10.3 - - + -
1747A GLY 2.8 18.7 + - - +
1748A ALA* 4.4 1.6 - - - -
1750A SER* 1.3 79.4 - - - +
1752A THR* 1.3 62.7 + - - +
1753A LEU* 3.3 6.9 + - - +
----------------------------------------------------------
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Residues in contact with THR1752 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1695A GLN* 2.7 31.6 + - - +
1748A ALA* 2.8 29.3 + - - +
1749A ALA 3.8 0.7 - - - +
1750A SER 5.1 0.7 - - - -
1751A LYS* 1.3 68.8 - - - +
1753A LEU* 1.3 61.9 + - - +
1754A SER* 3.8 15.7 - - - +
1755A HIS 4.4 2.2 - - - +
1757A GLN* 4.9 1.3 - - + -
1758A GLN* 3.2 53.2 + - + +
1761A LEU* 5.5 1.1 - - + +
1821A ALA* 3.6 25.3 - - + +
----------------------------------------------------------
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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
------------------------------------------------------------
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