Contacts of the helix formed by residues 1679 - 1703 (chain C) in PDB entry 5JCZ
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 ASP1679 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A HIS* 3.7 12.5 - - - +
1557C SER* 5.7 1.2 - - - +
1560C CYS* 3.8 16.4 - - - +
1561C ARG* 4.6 1.0 + - - -
1564C HIS* 2.9 30.9 + - - -
1677C GLY 3.6 1.2 + - - -
1678C MET* 1.3 75.1 - - - +
1680C PRO* 1.3 65.3 - - - +
1681C GLU* 3.8 4.3 - - - +
1682C LEU* 2.9 33.0 + - + +
1683C ILE* 3.0 10.2 + - - +
1828C PRO* 3.8 14.3 - - + +
1830C ASN* 2.8 28.8 + - - +
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Residues in contact with PRO1680 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ASP 5.8 2.9 - - - +
129A ARG* 5.1 9.6 - - - +
130A HIS* 3.6 40.4 - - + +
1678C MET 3.2 5.1 - - - +
1679C ASP* 1.3 82.0 - - - +
1681C GLU* 1.3 73.7 + - - +
1683C ILE* 3.7 11.8 - - + +
1684C LYS* 3.0 46.0 + - - +
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Residues in contact with GLU1681 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1680C PRO* 1.3 86.4 - - - +
1682C LEU* 1.3 61.7 + - - +
1684C LYS* 3.6 9.8 + - + +
1685C GLN* 2.9 37.0 + - - +
1826C THR* 5.0 1.6 - - + +
1828C PRO* 3.3 33.7 - - + +
1830C ASN* 3.2 30.7 + - - +
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Residues in contact with LEU1682 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1556C LEU* 4.4 11.2 - - + +
1557C SER* 6.1 0.4 - - - -
1560C CYS* 3.7 29.4 - - - -
1608C TYR* 4.5 7.0 - - + -
1678C MET* 3.9 20.4 - - + -
1679C ASP* 2.9 26.7 + - + +
1681C GLU* 1.3 76.0 - - - +
1683C ILE* 1.3 60.5 + - - +
1685C GLN* 3.2 9.4 + - - +
1686C VAL* 2.9 36.4 + - + +
1825C VAL* 3.7 29.4 - - + -
1826C THR 4.1 4.7 - - - +
1827C PHE* 3.9 19.7 - - + -
1828C PRO* 4.3 5.2 - - + -
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Residues in contact with ILE1683 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A ARG* 4.0 22.4 - - - +
1670C HIS* 3.9 28.5 - - + +
1673C MET* 3.9 41.7 - - + +
1674C CYS* 4.1 6.1 - - - +
1678C MET* 3.7 29.8 - - + +
1679C ASP 3.0 12.6 + - - +
1680C PRO* 3.7 9.2 - - + +
1682C LEU* 1.3 75.4 - - - +
1684C LYS* 1.3 58.7 + - - +
1686C VAL* 3.3 7.0 + - - +
1687C VAL* 3.0 31.0 + - + +
1733C LEU* 4.7 6.7 - - + -
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Residues in contact with LYS1684 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1680C PRO* 3.0 31.9 + - - +
1681C GLU* 3.8 10.5 - - + +
1683C ILE* 1.3 78.2 - - + +
1685C GLN* 1.3 57.6 + - + +
1687C VAL* 3.5 2.5 + - - +
1688C LYS* 3.0 27.2 + - - +
1732C ASN 5.2 6.1 - - - -
1733C LEU* 4.0 22.7 - - + +
1735C ASN* 4.6 16.4 + - - +
1736C SER* 3.7 35.1 - - - +
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Residues in contact with GLN1685 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1608C TYR* 3.5 15.2 + - + +
1681C GLU* 2.9 28.0 + - - +
1682C LEU* 3.2 8.8 + - - +
1684C LYS* 1.3 75.8 - - + +
1686C VAL* 1.3 61.7 + - - +
1688C LYS* 3.5 13.0 + - + +
1689C GLN* 3.0 26.5 + - - +
1736C SER 5.3 1.1 - - - +
1823C PHE* 5.7 1.7 - - - +
1824C PRO 4.1 3.6 - - - +
1825C VAL* 3.3 15.7 - - - +
1826C THR* 2.9 58.4 + - - +
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Residues in contact with VAL1686 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1549C PHE* 5.3 1.3 - - + -
1608C TYR* 3.6 26.0 - - + +
1611C LEU* 3.9 19.5 - - + -
1612C VAL* 5.6 1.6 - - + -
1615C LEU* 3.8 25.1 - - + -
1673C MET* 3.7 30.5 - - + -
1678C MET* 4.8 3.1 - - - -
1682C LEU 2.9 21.5 + - - +
1683C ILE 3.7 4.3 - - - +
1685C GLN* 1.3 76.8 - - - +
1687C VAL* 1.3 58.5 + - - +
1689C GLN* 3.0 6.6 + - - +
1690C MET* 2.9 34.0 + - + +
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Residues in contact with VAL1687 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1670C HIS* 4.5 3.8 - - + -
1673C MET* 4.7 3.8 - - + -
1683C ILE* 3.0 29.0 + - + +
1684C LYS* 3.7 5.4 - - - +
1686C VAL* 1.3 73.8 - - - +
1688C LYS* 1.3 64.8 + - - +
1690C MET* 3.2 21.2 + - + +
1691C PHE* 3.0 28.6 + - + -
1727C TRP* 4.0 14.8 - - + -
1728C LEU* 3.8 28.9 - - + -
1733C LEU* 3.7 23.8 - - + -
1736C SER* 4.4 3.8 - - - +
1738C ALA* 3.9 6.5 - - + -
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Residues in contact with LYS1688 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1684C LYS 3.0 17.6 + - - +
1685C GLN* 3.6 11.4 - - + +
1687C VAL* 1.3 76.1 - - - +
1689C GLN* 1.3 57.3 + - - +
1691C PHE* 3.5 1.7 + - - +
1692C TYR* 3.0 27.2 + - - +
1736C SER 3.8 18.4 - - - +
1737C GLY* 3.9 10.8 - - - +
1738C ALA* 3.8 12.5 - - - +
1741C THR* 3.8 25.7 - - + +
1823C PHE* 4.2 37.3 - - + +
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Residues in contact with GLN1689 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1608C TYR* 4.4 6.1 + - - +
1612C VAL* 3.7 31.4 - - + +
1615C LEU* 5.0 2.9 - - + -
1685C GLN 3.0 14.5 + - - +
1686C VAL* 3.2 12.3 - - + +
1688C LYS* 1.3 78.7 - - - +
1690C MET* 1.3 62.1 + - + +
1692C TYR* 3.4 12.7 + - - +
1693C ILE* 3.1 39.3 + - + +
1821C HIS 2.8 25.4 + - - -
1822C ILE* 3.4 9.9 - - - +
1823C PHE* 3.0 37.7 + - + +
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Residues in contact with MET1690 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1615C LEU* 3.6 22.7 - - + -
1619C LEU* 3.9 14.5 - - + +
1666C LEU* 4.3 21.8 - - + +
1669C PHE* 3.5 42.8 - - + -
1670C HIS 5.5 0.4 - - - +
1673C MET* 5.1 1.8 - - + -
1686C VAL* 2.9 23.7 + - + +
1687C VAL* 3.6 35.2 - - + +
1689C GLN* 1.3 77.5 - - - +
1691C PHE* 1.3 64.3 + - + +
1693C ILE* 3.2 8.5 + - - +
1694C ILE* 3.1 27.5 + - - +
1727C TRP* 4.6 7.0 - - + -
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Residues in contact with PHE1691 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1666C LEU* 4.0 15.7 - - + -
1687C VAL* 3.0 23.3 + - + +
1688C LYS 3.9 1.1 - - - +
1690C MET* 1.3 79.2 - - + +
1692C TYR* 1.3 59.9 + - - +
1694C ILE* 3.7 7.2 - - + +
1695C GLY 2.9 23.4 + - - -
1724C LEU* 3.5 45.1 - - + -
1727C TRP* 3.8 27.6 - + - -
1728C LEU* 3.5 29.6 - - + -
1738C ALA* 3.7 19.3 - - + +
1741C THR* 3.6 13.2 - - - +
1742C LEU* 3.3 33.1 - - + +
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Residues in contact with TYR1692 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1688C LYS 3.0 11.3 + - - +
1689C GLN* 3.6 19.3 - - - +
1690C MET 3.2 0.2 - - - -
1691C PHE* 1.3 75.6 - - - +
1693C ILE* 1.3 60.8 + - + +
1695C GLY* 3.6 0.6 - - - -
1696C ALA* 2.7 53.9 + - + +
1741C THR* 3.6 20.3 + - - -
1814C GLN* 5.9 0.2 + - - -
1817C MET* 4.0 18.9 - - + +
1818C ASP* 2.6 37.6 + - - +
1819C ALA 4.3 4.9 - - - -
1821C HIS* 3.8 25.8 - + + +
1823C PHE* 3.5 35.7 - + + -
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Residues in contact with ILE1693 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1612C VAL* 5.0 2.2 - - + +
1615C LEU* 3.7 26.9 - - + -
1616C GLU* 3.7 31.6 - - + +
1619C LEU* 4.7 11.4 - - + -
1620C GLN 5.0 1.1 - - - +
1623C ILE* 3.6 16.3 - - + +
1689C GLN* 3.1 32.4 + - + +
1690C MET* 3.2 7.8 + - - +
1692C TYR* 1.3 79.6 - - + +
1694C ILE* 1.3 63.3 + - - +
1696C ALA* 4.2 2.9 - - - -
1697C ILE* 3.2 37.3 + - + +
1819C ALA 4.2 15.9 - - - +
----------------------------------------------------------
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Residues in contact with ILE1694 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1619C LEU* 4.8 7.2 - - + -
1623C ILE* 3.6 22.6 - - + +
1627C MET* 4.0 25.1 - - + -
1662C ILE* 3.9 26.2 - - + -
1666C LEU* 4.2 22.2 - - + -
1690C MET 3.1 17.5 + - - +
1691C PHE* 3.7 12.6 - - + +
1692C TYR 3.2 0.2 - - - -
1693C ILE* 1.3 77.0 - - - +
1695C GLY* 1.3 59.3 + - - +
1698C THR* 2.6 34.7 + - - -
1724C LEU* 3.9 28.0 - - + -
1742C LEU* 5.0 2.2 - - + -
1745C LEU* 5.7 0.2 - - + -
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Residues in contact with GLY1695 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1691C PHE 2.9 11.1 + - - -
1692C TYR* 3.7 2.2 - - - -
1694C ILE* 1.3 75.8 - - - +
1696C ALA* 1.3 58.7 + - - +
1698C THR* 3.4 1.2 + - - -
1699C LEU* 2.9 33.5 + - - +
1741C THR 5.1 5.2 - - - -
1742C LEU* 3.7 21.7 - - - +
1745C LEU* 4.2 14.6 - - - +
1817C MET* 5.7 0.9 - - - -
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Residues in contact with ALA1696 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1692C TYR* 2.7 49.2 + - + +
1693C ILE 4.2 2.0 - - - +
1695C GLY* 1.3 72.1 - - - +
1697C ILE* 1.3 58.5 + - - +
1699C LEU* 4.0 0.7 - - - +
1700C ASN* 3.0 37.7 + - - +
1817C MET* 4.3 19.3 - - + -
1819C ALA* 4.1 18.2 - - + -
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Residues in contact with ILE1697 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1616C GLU* 5.1 2.0 - - - +
1620C GLN* 3.7 34.1 - - + +
1623C ILE* 3.6 40.2 - - + -
1624C VAL* 4.0 11.2 - - + +
1693C ILE* 3.2 22.4 + - + +
1696C ALA* 1.3 72.4 - - - +
1698C THR* 1.3 66.3 + - - +
1700C ASN* 3.5 4.4 + - - +
1701C ASN* 2.9 42.2 + - - +
1819C ALA* 3.9 20.9 - - + -
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Residues in contact with THR1698 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1623C ILE* 3.4 14.2 - - - +
1624C VAL* 6.1 0.7 - - - +
1627C MET* 3.6 20.4 - - + +
1628C LEU* 3.7 35.7 - - + +
1694C ILE 2.6 23.5 + - - -
1695C GLY 3.8 2.7 - - - -
1697C ILE* 1.3 80.3 - - - +
1699C LEU* 1.3 62.2 + - - +
1701C ASN* 3.5 3.5 + - - +
1702C LEU* 3.1 20.4 + - - +
1717C ILE* 4.7 4.0 - - + -
1745C LEU* 3.7 27.6 - - + -
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Residues in contact with LEU1699 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1695C GLY 2.9 17.7 + - - +
1696C ALA* 4.0 3.4 - - - +
1698C THR* 1.3 74.8 - - - +
1700C ASN* 1.3 61.7 + - - +
1702C LEU* 3.0 13.3 + - + +
1703C LEU* 2.9 50.0 + - + +
1744C PRO* 4.0 20.0 - - + +
1745C LEU* 4.0 11.4 - - + +
1748C ALA* 3.7 29.2 - - + -
1772C LEU* 4.4 10.5 - - + -
1776C GLN* 4.7 3.6 - - - +
1780C VAL* 5.6 0.7 - - + -
1817C MET* 3.7 33.7 - - + -
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Residues in contact with ASN1700 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1696C ALA 3.0 25.0 + - - +
1697C ILE* 3.8 5.8 - - - +
1699C LEU* 1.3 78.4 - - - +
1701C ASN* 1.3 64.2 + - - +
1703C LEU* 3.1 14.0 + - - +
1704C LEU* 3.2 27.0 + - + +
1816C LEU* 3.5 22.2 - - + +
1817C MET* 2.8 52.6 + - - +
1819C ALA* 4.4 9.7 - - - +
----------------------------------------------------------
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Residues in contact with ASN1701 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1624C VAL* 3.4 31.0 - - - +
1628C LEU* 3.6 23.3 - - + -
1697C ILE* 2.9 29.0 + - - +
1699C LEU 3.3 0.2 - - - -
1700C ASN* 1.3 79.1 - - - +
1702C LEU* 1.3 58.2 + - - +
1704C LEU* 4.5 8.4 - - - +
1705C ARG* 3.0 56.6 + - - +
1708C MET* 4.5 1.6 - - - +
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Residues in contact with LEU1702 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1628C LEU* 4.4 5.6 - - + -
1698C THR 3.1 10.0 + - - +
1699C LEU* 3.0 15.4 + - + +
1701C ASN* 1.3 76.5 - - - +
1703C LEU* 1.3 60.4 + - + +
1704C LEU 3.2 1.3 + - - -
1705C ARG 3.9 1.2 - - - +
1708C MET* 3.3 38.6 - - + +
1709C CYS* 3.1 31.6 - - - -
1717C ILE* 3.8 31.9 - - + -
1745C LEU* 4.5 9.0 - - + -
1748C ALA* 3.9 29.4 - - + -
1752C LEU* 4.0 16.2 - - + -
1780C VAL* 5.0 5.8 - - + +
1783C LEU* 3.7 3.6 - - - +
----------------------------------------------------------
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Residues in contact with LEU1703 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1699C LEU* 2.9 35.8 + - + +
1700C ASN* 3.1 9.3 + - - +
1702C LEU* 1.3 76.3 - - - +
1704C LEU* 1.3 62.2 + - - +
1776C GLN* 3.6 38.1 - - + +
1779C LYS* 3.5 31.6 - - + +
1780C VAL* 3.7 17.0 - - + -
1783C LEU* 3.4 16.6 - - - +
1815C LEU* 3.3 34.3 - - + +
1816C LEU* 3.7 14.4 - - + +
1817C MET 5.4 0.2 - - - +
----------------------------------------------------------
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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