Contacts of the helix formed by residues 1603 - 1632 (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 GLN1603 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1468A PHE* 4.1 25.5 - - - -
1530A GLN* 3.6 14.7 - - - +
1549A ILE* 4.0 19.0 + - - +
1552A GLY* 5.8 2.6 - - - -
1602A ILE* 1.3 78.5 + - - +
1604A ALA* 1.3 70.3 + - - +
1605A GLN* 3.5 34.4 + - + +
1606A GLU* 3.5 19.0 + - + +
1607A TRP* 3.1 15.0 - - - -
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Residues in contact with ALA1604 (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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1537A PHE* 5.2 0.2 - - + -
1548A ILE* 3.8 36.6 - - + +
1549A ILE* 5.7 2.7 - - + -
1552A GLY* 4.9 7.6 - - - -
1558A VAL* 4.7 2.9 - - + -
1602A ILE 3.6 3.0 + - - -
1603A GLN* 1.3 74.7 - - - +
1605A GLN* 1.3 59.3 + - - +
1606A GLU 2.8 11.8 + - - -
1607A TRP* 3.2 23.6 + - + +
1608A LEU* 3.0 34.5 + - + +
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Residues in contact with GLN1605 (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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1530A GLN* 3.2 24.9 + - - +
1533A GLN* 3.2 51.3 + - + +
1534A PHE* 4.2 9.8 - - + +
1537A PHE* 4.3 25.5 - - + -
1549A ILE* 5.7 1.1 - - + +
1603A GLN* 3.5 27.2 + - + +
1604A ALA* 1.3 78.0 - - - +
1606A GLU* 1.3 64.2 + - + +
1608A LEU* 4.4 2.7 - - - -
1609A ASN* 3.8 14.9 + - - +
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Residues in contact with GLU1606 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1599A LYS* 5.1 1.9 + - - -
1602A ILE* 4.1 22.6 - - + +
1603A GLN* 3.5 15.0 + - + +
1604A ALA 2.8 2.2 + - - -
1605A GLN* 1.3 80.7 - - + +
1607A TRP* 1.3 60.9 + - - +
1608A LEU 3.1 1.8 - - - -
1609A ASN* 2.9 22.4 + - - +
1610A ILE* 3.1 23.9 + - + +
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Residues in contact with TRP1607 (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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1555A HIS* 4.0 33.8 + + + -
1558A VAL* 3.6 42.0 - - + -
1572A ILE* 4.0 14.6 - - + -
1574A PHE* 5.2 2.0 - + - -
1579A ILE* 3.5 30.3 - - + -
1596A ILE* 4.2 11.6 - - + +
1597A GLU 5.4 0.2 - - - +
1598A LEU* 3.7 29.6 - - + -
1602A ILE* 4.1 14.6 - - + -
1603A GLN 3.1 24.4 + - - -
1604A ALA* 3.3 20.2 - - + +
1606A GLU* 1.3 80.1 - - - +
1608A LEU* 1.3 73.3 + - + +
1610A ILE* 3.5 12.3 - - + +
1611A LEU* 2.8 32.4 + - + +
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Residues in contact with LEU1608 (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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1534A PHE* 3.4 29.8 - - + -
1537A PHE* 3.4 39.7 - - + -
1548A ILE* 4.7 4.3 - - + -
1558A VAL* 4.0 8.1 - - + -
1562A MET* 5.0 4.3 - - + -
1565A MET* 3.7 23.8 - - + -
1566A PHE* 4.9 1.1 - - + -
1604A ALA* 3.0 28.1 + - + +
1605A GLN 4.5 0.9 - - - +
1607A TRP* 1.3 104.9 - - + +
1609A ASN* 1.3 56.1 + - - +
1611A LEU* 3.4 12.8 + - + +
1612A ASP* 3.0 23.2 + - - +
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Residues in contact with ASN1609 (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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1533A GLN 5.2 7.3 - - - +
1534A PHE* 3.7 20.1 - - + -
1605A GLN 3.8 10.7 + - - +
1606A GLU* 2.9 11.4 + - - +
1608A LEU* 1.3 77.1 - - - +
1610A ILE* 1.3 69.8 + - - +
1612A ASP* 3.5 5.0 + - - +
1613A THR* 3.1 33.5 + - - -
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Residues in contact with ILE1610 (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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1596A ILE* 4.0 25.8 - - + -
1606A GLU* 3.1 25.2 + - + +
1607A TRP* 3.5 14.1 - - + +
1609A ASN* 1.3 83.3 - - - +
1611A LEU* 1.3 56.8 + - - +
1613A THR* 3.5 5.2 + - - -
1614A GLU* 3.1 34.1 + - - +
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Residues in contact with LEU1611 (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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1562A MET* 3.9 25.4 - - + -
1566A PHE* 5.6 1.3 - - + -
1572A ILE* 3.6 28.5 - - + -
1579A ILE* 4.6 5.2 - - + -
1582A VAL* 4.4 10.8 - - + -
1592A LEU* 3.9 13.7 - - + -
1596A ILE* 3.4 23.3 - - + +
1607A TRP* 2.8 29.1 + - + +
1608A LEU* 3.5 9.4 - - + +
1609A ASN 3.2 0.2 - - - -
1610A ILE* 1.3 74.5 - - - +
1612A ASP* 1.3 67.2 + - - +
1614A GLU* 2.9 11.8 + - - -
1615A ILE* 2.9 36.6 + - + +
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Residues in contact with ASP1612 (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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1534A PHE* 4.0 11.5 - - + -
1536A ARG* 3.5 25.6 + - - +
1566A PHE* 3.3 33.9 - - + -
1608A LEU 3.0 16.8 + - - +
1609A ASN* 3.8 9.1 - - - +
1610A ILE 3.5 0.2 - - - -
1611A LEU* 1.3 75.3 - - - +
1613A THR* 1.3 58.3 + - - +
1615A ILE* 3.2 22.8 - - - +
1616A LYS* 3.6 24.9 + - - +
1841A ILE* 5.8 1.0 - - - +
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Residues in contact with THR1613 (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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1609A ASN* 3.1 22.9 + - - -
1610A ILE* 3.8 5.3 - - - -
1611A LEU 3.1 1.0 - - - -
1612A ASP* 1.3 78.6 - - - +
1614A GLU* 1.3 61.4 + - - +
1615A ILE 3.3 0.2 - - - -
1616A LYS* 3.4 13.8 + - - +
1617A LEU* 3.0 41.3 + - + +
1744A LEU* 5.4 7.2 - - + -
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Residues in contact with GLU1614 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1592A LEU* 4.2 18.4 - - + -
1593A ASN* 4.5 6.9 - - - +
1594A GLU* 3.9 53.1 + - - +
1596A ILE* 4.5 4.9 - - + -
1610A ILE* 3.1 23.6 + - + +
1611A LEU* 2.9 7.7 + - - +
1613A THR* 1.3 78.6 - - - +
1615A ILE* 1.3 59.1 + - - +
1617A LEU* 3.7 25.9 - - - +
1618A SER* 2.8 31.2 + - - -
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Residues in contact with ILE1615 (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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1536A ARG* 5.9 0.2 - - - +
1566A PHE* 3.6 33.2 - - + -
1569A ILE* 3.7 23.6 - - + -
1582A VAL* 4.6 7.4 - - + -
1590A LEU* 4.2 12.0 - - + +
1592A LEU* 4.1 14.8 - - + -
1611A LEU* 2.9 36.4 + - + +
1612A ASP* 3.2 17.0 - - - +
1614A GLU* 1.3 75.6 - - - +
1616A LYS* 1.3 65.6 + - + +
1618A SER* 3.2 2.1 + - - -
1619A VAL* 2.9 35.5 + - - +
1761A GLU* 5.8 0.9 - - - -
1762A TYR* 4.6 15.7 - - + +
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Residues in contact with LYS1616 (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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1536A ARG* 4.9 4.2 - - - +
1612A ASP* 3.6 36.2 + - - +
1613A THR* 3.4 15.0 + - - +
1614A GLU 3.3 0.2 - - - -
1615A ILE* 1.3 80.9 - - + +
1617A LEU* 1.3 62.7 + - - +
1619A VAL* 3.3 2.6 + - - +
1620A PHE* 3.0 23.9 + - - +
1744A LEU* 3.8 20.2 - - + +
1759A LYS* 6.3 0.4 - - + -
1760A PHE* 3.8 35.8 - - + +
1761A GLU* 4.1 23.6 - - - +
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Residues in contact with LEU1617 (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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1593A ASN* 4.1 2.7 - - - +
1613A THR* 3.0 29.1 + - + +
1614A GLU* 3.7 33.2 - - - +
1616A LYS* 1.3 77.1 - - - +
1618A SER* 1.3 56.5 - - - +
1620A PHE* 3.5 13.4 + - + +
1621A THR* 2.9 31.0 + - - +
1743A ASP* 5.7 4.5 - - + +
1744A LEU* 4.2 26.2 - - + -
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Residues in contact with SER1618 (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 LEU* 3.9 9.6 - - - +
1591A ASN 3.0 26.2 + - - -
1592A LEU* 3.6 13.5 - - - -
1593A ASN* 3.3 18.6 + - - -
1614A GLU 2.8 20.3 + - - -
1615A ILE* 3.5 7.4 - - - -
1616A LYS 3.1 0.2 - - - -
1617A LEU* 1.3 74.9 - - - +
1619A VAL* 1.3 65.1 - - - +
1621A THR* 3.0 4.3 + - - -
1622A GLN* 3.0 27.1 + - - +
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Residues in contact with VAL1619 (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 LEU* 4.1 8.3 - - + +
1615A ILE 2.9 19.6 + - - +
1616A LYS 3.6 4.5 - - - +
1618A SER* 1.3 76.6 - - - +
1620A PHE* 1.3 58.2 + - - +
1622A GLN* 3.3 6.6 + - - +
1623A PHE* 2.8 29.0 + - + +
1644A ILE* 4.3 7.9 - - + -
1646A GLN* 3.5 35.7 - - + +
1647A ALA* 4.3 3.4 - - - +
1758A TYR* 5.4 0.2 - - + -
1760A PHE* 3.9 19.3 - - + +
1762A TYR* 3.8 37.9 - - + -
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Residues in contact with PHE1620 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1616A LYS 3.0 16.1 + - - +
1617A LEU* 3.6 15.0 - - + +
1618A SER 3.2 0.2 - - - -
1619A VAL* 1.3 76.5 - - - +
1621A THR* 1.3 68.3 + - - +
1623A PHE* 3.2 15.2 + + - +
1624A ARG* 2.9 48.7 + - + +
1736A GLN* 5.3 3.1 - - - -
1743A ASP* 3.3 52.7 - - + -
1744A LEU* 3.6 18.2 - - + -
1746A SER* 4.1 9.6 - - - -
1760A PHE* 3.9 31.4 - + + -
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Residues in contact with THR1621 (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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1593A ASN* 3.4 30.7 + - - +
1617A LEU* 2.9 16.0 + - - +
1618A SER 3.0 8.8 + - - -
1620A PHE* 1.3 82.5 - - - +
1622A GLN* 1.3 69.2 + - + +
1624A ARG* 3.1 29.7 + - - +
1625A ASP* 2.9 37.4 + - - +
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Residues in contact with GLN1622 (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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1589A VAL 5.3 0.2 + - - -
1590A LEU* 3.7 21.9 - - + +
1591A ASN* 4.1 17.4 + - - +
1593A ASN* 6.0 1.3 - - - +
1618A SER* 3.0 17.8 + - - +
1619A VAL 3.7 5.2 - - - +
1621A THR* 1.3 77.6 - - + +
1623A PHE* 1.3 63.8 + - - +
1625A ASP* 4.4 3.8 - - - +
1626A CYS* 3.0 28.1 + - - +
1642A LYS 5.6 0.4 - - - -
1643A TYR* 3.5 21.6 - - + -
1644A ILE* 3.0 44.0 + - + +
1647A ALA* 3.4 12.8 - - + -
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Residues in contact with PHE1623 (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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1619A VAL* 2.8 15.4 + - + +
1620A PHE* 3.2 26.2 - + - +
1621A THR 3.1 0.4 - - - -
1622A GLN* 1.3 77.0 - - - +
1624A ARG* 1.3 62.9 + - + +
1627A LEU* 2.9 61.7 + - + +
1647A ALA* 3.4 15.0 - - - +
1650A LEU* 3.5 49.6 - - + -
1651A SER* 3.7 7.8 + - - -
1654A VAL* 4.2 7.2 - - + -
1736A GLN* 3.4 25.4 - - - -
1747A VAL* 3.7 25.4 - - + -
1760A PHE* 4.7 4.7 - + + -
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Residues in contact with ARG1624 (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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1620A PHE* 2.9 42.7 + - + +
1621A THR* 3.1 27.5 + - - +
1623A PHE* 1.3 86.7 - - + +
1625A ASP* 1.3 98.1 + - - +
1627A LEU* 4.0 4.4 - - - +
1628A GLY* 2.9 21.8 + - - -
1736A GLN* 5.2 5.2 - - - +
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Residues in contact with ASP1625 (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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1621A THR* 2.9 33.6 + - - +
1622A GLN* 4.5 1.9 - - - +
1624A ARG* 1.3 109.9 + - - +
1626A CYS* 1.3 62.6 + - - +
1628A GLY* 3.3 1.4 + - - -
1629A GLN* 3.0 18.7 + - - +
1643A TYR* 3.4 26.5 + - + +
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Residues in contact with CYS1626 (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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1622A GLN 3.0 16.1 + - - +
1625A ASP* 1.3 79.6 - - - +
1627A LEU* 1.3 62.0 + - - +
1629A GLN* 3.1 4.7 + - - +
1630A LEU* 3.0 25.5 + - - +
1639A VAL* 3.2 28.3 - - - -
1643A TYR* 3.3 26.9 + - + -
1648A ILE* 3.6 19.3 - - - +
1651A SER* 3.3 23.3 - - - +
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Residues in contact with LEU1627 (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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1623A PHE* 2.9 50.1 + - + +
1624A ARG* 4.0 3.6 - - - +
1626A CYS* 1.3 77.0 - - - +
1628A GLY* 1.3 57.7 + - - +
1630A LEU* 3.4 3.8 + - + +
1631A LYS* 2.9 47.8 + - + +
1651A SER* 3.3 38.1 - - - +
1654A VAL* 4.4 8.3 - - + -
1655A MET* 3.9 20.6 - - + +
1736A GLN* 3.6 21.5 - - - +
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Residues in contact with GLY1628 (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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1624A ARG 2.9 17.8 + - - -
1625A ASP 3.7 1.8 - - - -
1627A LEU* 1.3 73.6 - - - +
1629A GLN* 1.3 64.4 + - - +
1631A LYS* 3.4 10.5 + - - +
1632A ASP* 3.0 22.5 + - - +
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Residues in contact with GLN1629 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1625A ASP 3.0 9.4 + - - +
1626A CYS 3.1 8.9 + - - +
1628A GLY* 1.3 76.5 - - - +
1630A LEU* 1.3 58.0 + - - +
1632A ASP* 2.9 24.4 + - + +
1633A GLY 3.0 8.1 + - - -
1634A THR* 3.3 31.8 + - + +
1638A VAL* 4.8 12.1 - - - +
1639A VAL* 4.7 4.6 - - + +
1642A LYS* 5.3 9.1 - - - +
1643A TYR* 2.6 41.3 + - - -
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Residues in contact with LEU1630 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1626A CYS* 3.0 17.9 + - - +
1627A LEU* 3.7 7.2 - - + +
1629A GLN* 1.3 75.2 - - - +
1631A LYS* 1.3 58.7 + - - +
1633A GLY* 3.0 18.1 + - - +
1634A THR* 3.5 22.8 - - - +
1636A ILE* 3.9 30.1 - - + +
1639A VAL* 3.6 23.8 - - + -
1651A SER* 3.8 31.0 - - - -
1652A ALA* 4.4 9.2 - - + +
1655A MET* 3.9 30.4 - - + +
1679A LYS* 6.5 1.1 - - - -
1705A TYR* 5.5 0.9 - - - +
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Residues in contact with LYS1631 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1627A LEU* 2.9 39.9 + - + +
1628A GLY* 3.5 10.8 - - - +
1630A LEU* 1.3 73.9 - - - +
1632A ASP* 1.3 57.7 + - - +
1633A GLY* 3.0 9.0 + - - -
1654A VAL* 6.1 3.0 - - - +
1655A MET* 4.1 20.9 - - + +
1658A GLU* 3.1 34.0 + - - +
1736A GLN* 5.3 5.9 + - - -
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Residues in contact with ASP1632 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1628A GLY 3.0 12.4 + - - +
1629A GLN* 2.9 14.5 + - + +
1631A LYS* 1.3 74.3 - - - +
1633A GLY* 1.3 58.9 + - - +
1634A THR 3.7 0.4 - - - +
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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