Contacts of the helix formed by residues 1576 - 1603 (chain A) in PDB entry 6J8H
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 VAL1576 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1494A GLN* 3.9 20.6 - - - +
1572A TYR 5.0 0.9 - - - +
1573A TYR 3.5 2.0 + - - -
1574A PHE 3.4 1.6 - - - +
1575A THR* 1.3 90.4 + - - +
1577A GLY* 1.3 66.7 + - - +
1578A TRP* 3.4 22.2 - - + +
1579A ASN* 3.4 37.1 + - - +
1580A ILE* 3.4 17.7 + - - +
1625A LYS* 6.0 0.7 - - - +
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Residues in contact with GLY1577 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1575A THR 3.6 3.4 + - - -
1576A VAL* 1.3 75.0 - - - +
1578A TRP* 1.3 62.0 + - - +
1580A ILE* 3.3 16.9 + - - +
1581A PHE* 3.3 11.4 + - - +
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Residues in contact with TRP1578 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1576A VAL* 3.3 12.7 - - + +
1577A GLY* 1.3 73.4 - - - +
1579A ASN* 1.3 67.0 + - - +
1581A PHE* 3.1 42.8 + + + +
1582A ASP* 2.9 23.0 + - + +
1621A LEU 4.6 1.8 - - - -
1622A ARG* 4.5 6.3 - - + -
1624A VAL* 4.2 15.5 - - + -
1625A LYS* 3.7 66.4 - - + +
1631A ARG* 3.8 32.0 - - + +
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Residues in contact with ASN1579 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1565A LYS* 3.8 18.4 + - - +
1569A LEU* 4.5 8.7 - - - +
1573A TYR* 2.7 76.3 + - + +
1576A VAL* 3.4 28.1 + - - +
1577A GLY 3.3 0.6 - - - -
1578A TRP* 1.3 75.9 - - - +
1580A ILE* 1.3 57.6 + - - +
1582A ASP* 3.1 6.6 + - - +
1583A PHE 2.8 16.6 + - - -
1625A LYS* 4.1 12.7 + - - +
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Residues in contact with ILE1580 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1573A TYR* 4.3 2.0 - - + -
1574A PHE* 2.9 59.0 - - + +
1576A VAL 3.6 12.6 - - - +
1577A GLY* 3.3 10.7 + - - +
1578A TRP 3.2 0.8 - - - -
1579A ASN* 1.3 76.5 - - - +
1581A PHE* 1.3 66.3 + - - +
1583A PHE* 3.2 4.4 + - + +
1584A VAL* 2.9 35.4 + - + +
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Residues in contact with PHE1581 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1577A GLY 3.3 9.0 + - - +
1578A TRP* 3.1 44.0 + + + +
1580A ILE* 1.3 78.9 - - - +
1582A ASP* 1.3 54.1 + - - +
1584A VAL* 3.3 9.2 + - + +
1585A VAL* 2.7 59.1 + - + +
1618A GLY* 4.0 4.3 - - - -
1621A LEU* 3.8 28.0 - - + -
1622A ARG* 4.1 22.4 - - + -
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Residues in contact with ASP1582 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1561A GLU* 3.2 7.1 - - - +
1562A CYS* 5.4 3.7 - - - +
1565A LYS* 3.1 23.1 + - - +
1573A TYR* 4.6 2.4 + - - +
1578A TRP* 2.9 13.2 + - + +
1579A ASN* 3.4 12.1 - - - +
1581A PHE* 1.3 80.6 - - + +
1583A PHE* 1.3 59.4 + - - +
1585A VAL* 2.7 28.5 - - - +
1586A VAL* 3.4 10.9 + - - +
1622A ARG* 2.5 54.8 + - - +
1625A LYS* 5.8 3.5 + - + +
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Residues in contact with PHE1583 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1562A CYS* 4.1 21.3 - - - -
1566A LEU* 4.9 10.5 - - + -
1573A TYR* 3.0 26.0 + + + +
1574A PHE* 4.4 27.4 - + + -
1579A ASN 2.8 12.7 + - - +
1580A ILE* 3.6 8.7 - - + +
1582A ASP* 1.3 72.1 - - - +
1584A VAL* 1.3 74.1 + - + +
1586A VAL* 3.3 16.1 + - - +
1587A ILE* 3.4 39.1 + - + +
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Residues in contact with VAL1584 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1580A ILE* 2.9 35.4 + - + +
1581A PHE* 3.7 10.3 - - + +
1582A ASP 3.3 0.2 - - - -
1583A PHE* 1.3 88.0 - - + +
1585A VAL* 1.3 62.4 + - + +
1587A ILE* 3.2 7.6 + - + +
1588A ILE* 3.1 38.9 + - + +
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Residues in contact with VAL1585 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1581A PHE* 2.7 55.4 + - + +
1582A ASP* 2.7 35.9 - - - +
1584A VAL* 1.3 76.7 - - + +
1586A VAL* 1.3 63.0 + - + +
1588A ILE* 3.3 10.6 + - + +
1589A SER* 2.9 30.2 + - - -
1615A ALA 5.6 1.2 - - - +
1618A GLY* 4.4 17.5 - - - +
1619A ARG* 4.8 8.1 - - + +
1622A ARG* 4.0 15.7 - - + +
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Residues in contact with VAL1586 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1555A ILE* 5.8 0.9 - - + -
1558A PHE* 4.2 27.1 - - + +
1559A THR* 3.1 34.1 - - + +
1562A CYS* 4.4 17.3 - - + -
1582A ASP* 3.5 18.4 - - - +
1583A PHE* 3.3 8.7 + - + +
1584A VAL 3.2 0.4 - - - -
1585A VAL* 1.3 87.5 - - + +
1587A ILE* 1.3 64.9 + - + +
1589A SER* 3.3 6.1 + - - -
1590A ILE* 3.1 30.8 + - + +
1622A ARG* 5.3 0.2 - - - +
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Residues in contact with ILE1587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1583A PHE* 3.4 39.0 + - + +
1584A VAL* 3.2 10.4 + - + +
1586A VAL* 1.3 80.4 - - + +
1588A ILE* 1.3 66.1 + - + +
1590A ILE* 4.2 6.2 - - + +
1591A VAL* 3.1 38.4 + - + +
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Residues in contact with ILE1588 (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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1584A VAL* 3.1 32.5 + - + +
1585A VAL* 3.7 9.6 - - + +
1587A ILE* 1.3 79.5 - - + +
1589A SER* 1.3 57.3 + - - +
1591A VAL* 3.5 5.3 + - - +
1592A GLY* 2.9 26.3 + - - -
1615A ALA* 3.3 31.5 - - + +
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Residues in contact with SER1589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1555A ILE* 3.7 14.8 - - - +
1585A VAL 2.9 18.6 + - - -
1586A VAL* 3.3 8.3 + - - -
1588A ILE* 1.3 75.8 - - - +
1590A ILE* 1.3 64.9 + - - +
1592A GLY* 3.5 1.1 + - - -
1593A MET* 3.2 21.5 + - - +
1615A ALA* 5.0 10.1 + - - -
1616A ARG* 5.1 1.2 - - - +
1619A ARG* 2.4 45.0 + - - -
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Residues in contact with ILE1590 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1555A ILE* 4.1 14.8 - - + -
1559A THR* 3.6 28.9 - - + +
1586A VAL* 3.1 20.9 + - + +
1587A ILE* 4.2 6.5 - - + +
1589A SER* 1.3 73.8 - - - +
1591A VAL* 1.3 66.4 + - + +
1593A MET* 3.3 12.6 + - + +
1594A PHE* 3.0 44.0 + - + +
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Residues in contact with VAL1591 (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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1587A ILE* 3.1 28.0 + - + +
1588A ILE* 3.8 4.9 - - - +
1589A SER 3.3 0.4 - - - -
1590A ILE* 1.3 79.4 - - + +
1592A GLY* 1.3 59.3 + - - +
1594A PHE* 4.5 5.4 - - - -
1595A LEU* 2.8 59.1 + - + +
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Residues in contact with GLY1592 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1588A ILE 2.9 18.0 + - - -
1589A SER 3.5 1.8 + - - -
1590A ILE 3.2 0.4 - - - -
1591A VAL* 1.3 78.7 - - - +
1593A MET* 1.3 61.3 + - - +
1595A LEU* 4.7 0.7 - - - -
1596A ALA* 3.2 23.9 + - - +
1612A ILE* 3.6 28.5 - - - +
1613A ARG* 5.5 3.1 - - - +
1615A ALA* 4.7 5.4 - - - -
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Residues in contact with MET1593 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1548A TYR* 4.5 18.2 - - + +
1552A VAL* 4.4 20.6 - - + -
1555A ILE* 3.1 44.6 - - + -
1589A SER 3.2 11.6 + - - +
1590A ILE* 3.3 13.0 + - + +
1592A GLY* 1.3 77.3 - - - +
1594A PHE* 1.3 87.4 + - + +
1596A ALA* 3.5 4.3 + - - +
1597A ASP* 2.9 37.1 + - - +
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Residues in contact with PHE1594 (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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1590A ILE* 3.0 32.9 + - + +
1591A VAL* 3.9 5.6 - - - +
1593A MET* 1.3 95.3 - - - +
1595A LEU* 1.3 61.0 + - + +
1597A ASP* 3.0 13.5 + - + +
1598A LEU* 2.7 34.6 + - - +
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Residues in contact with LEU1595 (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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1591A VAL* 2.8 46.9 + - + +
1592A GLY 4.2 2.2 - - - +
1594A PHE* 1.3 76.2 - - + +
1596A ALA* 1.3 53.4 + - - +
1598A LEU* 3.6 19.2 - - + +
1599A ILE* 2.7 49.1 + - + +
1612A ILE* 4.3 21.1 - - + -
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Residues in contact with ALA1596 (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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1592A GLY 3.2 18.3 + - - +
1593A MET* 3.7 6.7 - - - +
1595A LEU* 1.3 78.2 - - - +
1597A ASP* 1.3 55.3 + - - +
1599A ILE* 3.3 7.3 + - - +
1600A GLU* 2.8 38.0 + - - +
1609A PHE* 2.8 38.5 - - + -
1612A ILE* 4.4 6.0 - - + +
1613A ARG* 4.9 6.3 - - + -
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Residues in contact with ASP1597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1548A TYR* 3.7 30.6 + - - -
1593A MET* 2.9 20.7 + - - +
1594A PHE* 3.0 18.9 + - + +
1596A ALA* 1.3 77.4 - - - +
1598A LEU* 1.3 62.2 + - - +
1600A GLU* 3.2 15.8 + - - +
1601A THR* 2.8 26.7 + - - +
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Residues in contact with LEU1598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1594A PHE 2.7 17.9 + - - +
1595A LEU* 3.6 22.9 - - + +
1597A ASP* 1.3 71.8 - - - +
1599A ILE* 1.3 61.9 + - + +
1601A THR* 2.7 16.4 - - + +
1602A TYR* 2.7 54.1 + - + +
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Residues in contact with ILE1599 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1595A LEU* 2.7 34.0 + - + +
1596A ALA* 3.3 7.6 - - - +
1598A LEU* 1.3 81.0 - - + +
1600A GLU* 1.3 53.5 + - + +
1602A TYR* 4.5 4.3 - - - -
1603A PHE* 2.3 46.2 + - - +
1604A VAL 5.0 1.3 - - - +
1605A SER 4.2 17.9 - - - +
1608A LEU* 3.9 28.5 - - + -
1609A PHE* 4.4 22.0 - - + +
1612A ILE* 4.2 19.1 - - + -
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Residues in contact with GLU1600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1548A TYR* 6.1 0.9 - - - -
1596A ALA* 2.8 16.1 + - - +
1597A ASP* 3.5 17.1 - - - +
1598A LEU 3.2 0.2 - - - -
1599A ILE* 1.3 79.3 - - + +
1601A THR* 1.3 58.1 + - - +
1603A PHE* 2.7 44.2 - - + -
1609A PHE* 3.7 27.7 - - + -
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Residues in contact with THR1601 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1597A ASP 2.8 17.4 + - - +
1598A LEU* 2.7 36.6 - - + +
1600A GLU* 1.3 73.6 - - - +
1602A TYR* 1.3 65.2 + - + +
1603A PHE* 3.3 16.5 - - - -
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Residues in contact with TYR1602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1598A LEU* 2.7 39.3 + - + +
1599A ILE* 4.0 3.8 - - - +
1601A THR* 1.3 77.5 + - - +
1603A PHE* 1.3 77.8 + - - +
1604A VAL* 4.2 6.4 - - - +
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Residues in contact with PHE1603 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1599A ILE* 2.3 34.8 + - - +
1600A GLU* 2.7 35.0 - - + -
1601A THR* 3.3 17.3 - - - -
1602A TYR* 1.3 75.7 - - - +
1604A VAL* 1.3 82.2 + - + +
1605A SER 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