Contacts of the helix formed by residues 1593 - 1620 (chain A) in PDB entry 5JCY
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 LEU1593 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1515A VAL* 3.7 30.3 - - + -
1519A ASP* 6.3 1.3 - - + -
1527A VAL* 3.9 14.4 - - + -
1531A LEU* 4.6 5.6 - - + -
1566A LEU* 3.8 23.6 - - + +
1588A LEU* 3.8 19.0 - - + +
1591A PHE* 3.8 11.6 + - + +
1592A ASP* 1.3 76.0 + - - +
1594A ALA* 1.3 63.6 + - - +
1595A GLU 3.2 3.4 - - - +
1596A TYR* 2.9 28.9 + - + +
1597A ARG* 3.0 22.8 + - + +
409B LEU* 3.6 31.2 - - + -
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Residues in contact with ALA1594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1572A GLU* 5.1 1.1 - - - +
1592A ASP* 3.0 19.1 + - - +
1593A LEU* 1.3 77.2 - - - +
1595A GLU* 1.3 62.0 + - - +
1597A ARG* 3.2 31.5 + - - +
1598A GLN* 3.2 20.6 + - - +
408B LEU* 3.9 11.4 - - + +
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Residues in contact with GLU1595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1593A LEU 3.2 0.8 - - - -
1594A ALA* 1.3 77.3 - - - +
1596A TYR* 1.3 62.1 + - + +
1598A GLN* 3.4 9.0 + - - +
1599A VAL* 3.3 25.5 + - - +
408B LEU* 4.0 26.4 - - + +
409B LEU 3.3 25.4 + - - +
410B LYS* 3.5 11.6 + - - +
411B ALA* 2.9 33.4 + - + +
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Residues in contact with TYR1596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1527A VAL* 4.9 0.2 - - + -
1528A ARG* 3.2 37.3 - - - +
1531A LEU* 3.3 47.8 - - + -
1535A ILE* 5.3 3.5 - - + +
1566A LEU* 5.5 2.5 - - + -
1593A LEU* 2.9 26.5 + - + +
1595A GLU* 1.3 75.7 - - + +
1597A ARG* 1.3 65.0 + - + +
1599A VAL* 3.3 4.6 + - + +
1600A LEU* 3.0 33.4 + - + +
409B LEU* 4.0 30.9 - - + +
410B LYS 3.7 5.2 + - - -
411B ALA* 3.6 25.1 - - + -
412B PRO* 3.7 12.9 - - + +
417B MET* 4.3 13.0 - - + -
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Residues in contact with ARG1597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1563A LEU* 3.7 16.3 - - + +
1566A LEU* 3.8 39.8 + - + -
1567A LYS* 3.7 35.9 - - - +
1570A SER* 4.1 7.9 - - - -
1572A GLU* 3.1 29.0 + - - -
1575A PHE* 4.3 9.8 - - - -
1592A ASP* 4.4 3.0 + - - -
1593A LEU* 3.0 19.9 + - + +
1594A ALA* 3.2 38.3 + - - +
1596A TYR* 1.3 77.8 - - - +
1598A GLN* 1.3 56.3 + - - +
1600A LEU* 3.3 4.1 + - - -
1601A SER* 2.8 34.4 + - - -
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Residues in contact with GLN1598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1594A ALA 3.2 12.7 + - - +
1595A GLU* 3.5 12.0 - - - +
1596A TYR 3.2 0.2 - - - -
1597A ARG* 1.3 77.6 - - - +
1599A VAL* 1.3 58.1 + - + +
1601A SER* 3.2 8.1 + - - -
1602A ASP* 2.9 47.5 + - - +
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Residues in contact with VAL1599 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1535A ILE* 3.7 21.5 - - + -
1595A GLU 3.3 15.3 + - - +
1596A TYR* 3.3 7.6 + - - +
1598A GLN* 1.3 77.4 - - + +
1600A LEU* 1.3 58.8 + - - +
1602A ASP* 3.2 10.7 + - - +
1603A LEU* 2.9 27.2 + - - +
411B ALA* 4.2 7.9 - - + -
412B PRO 3.4 20.2 - - - +
413B THR* 4.3 4.3 - - + -
414B LEU* 3.7 39.3 - - + +
417B MET* 4.1 7.4 - - + -
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Residues in contact with LEU1600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1531A LEU* 5.2 4.7 - - + -
1534A THR* 5.6 2.7 - - + -
1535A ILE* 3.9 28.7 - - + -
1538A ILE* 5.7 2.0 - - + -
1559A THR* 3.7 21.6 - - + +
1562A PHE* 3.7 29.4 - - + -
1563A LEU* 4.7 14.6 - - + +
1566A LEU* 3.3 34.1 - - + -
1596A TYR* 3.0 22.0 + - + +
1597A ARG* 3.7 5.6 - - - +
1599A VAL* 1.3 76.4 - - - +
1601A SER* 1.3 57.1 + - - +
1603A LEU* 3.2 9.7 + - + +
1604A ALA* 2.8 29.5 + - - +
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Residues in contact with SER1601 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1563A LEU* 3.2 27.2 - - - +
1567A LYS* 5.4 1.9 + - - -
1597A ARG 2.8 22.9 + - - -
1598A GLN* 3.5 8.2 - - - -
1600A LEU* 1.3 73.3 - - - +
1602A ASP* 1.3 60.9 + - - +
1604A ALA* 3.2 5.8 + - - +
1605A ILE* 3.0 37.6 + - - +
1827A PHE* 4.0 8.2 - - - -
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Residues in contact with ASP1602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1598A GLN* 2.9 34.0 + - - +
1599A VAL* 3.4 11.7 - - - +
1601A SER* 1.3 75.7 - - - +
1603A LEU* 1.3 64.5 + - - +
1605A ILE* 3.3 16.7 + - - +
1606A GLN* 3.1 26.0 + - - +
414B LEU* 4.1 20.4 + - + +
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Residues in contact with LEU1603 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1535A ILE* 4.4 21.5 - - + +
1538A ILE* 4.1 31.4 - - + -
1539A LYS* 4.0 35.4 - - + +
1542A LEU* 5.5 1.1 - - + -
1559A THR* 4.1 16.4 - - + +
1599A VAL 2.9 14.4 + - - +
1600A LEU* 3.4 11.2 - - + +
1602A ASP* 1.3 75.0 - - - +
1604A ALA* 1.3 59.9 + - - +
1606A GLN* 3.0 12.2 + - + +
1607A ILE* 2.9 45.3 + - + +
414B LEU* 3.9 11.3 - - + +
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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
----------------------------------------------------------
1556A LEU* 3.6 15.3 - - + +
1559A THR* 4.0 17.2 - - + +
1560A CYS* 4.4 7.0 - - - -
1563A LEU* 5.7 2.5 - - + -
1600A LEU 2.8 16.4 + - - +
1601A SER* 3.2 2.9 + - - +
1603A LEU* 1.3 76.0 - - - +
1605A ILE* 1.3 57.7 + - - +
1607A ILE* 3.3 3.8 + - - +
1608A TYR* 2.9 31.4 + - - +
1827A PHE* 3.6 26.9 - - + -
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Residues in contact with ILE1605 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1601A SER* 3.0 22.9 + - - +
1602A ASP* 3.5 19.7 - - - +
1604A ALA* 1.3 76.3 - - - +
1606A GLN* 1.3 63.8 + - + +
1608A TYR* 3.3 5.0 + - - +
1609A GLN* 3.0 45.1 + - + +
1825A VAL* 4.1 17.9 - - + +
1827A PHE* 3.8 18.6 - - + -
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Residues in contact with GLN1606 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1539A LYS* 2.9 29.1 + - - +
1602A ASP 3.1 12.0 + - - +
1603A LEU* 3.0 13.2 + - + +
1605A ILE* 1.3 76.8 - - + +
1607A ILE* 1.3 64.1 + - + +
1609A GLN* 3.3 16.0 + - - +
1610A GLN* 3.1 21.1 + - - +
414B LEU* 3.4 24.7 - - - +
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Residues in contact with ILE1607 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1538A ILE* 4.0 5.4 - - + -
1542A LEU* 3.6 30.7 - - + -
1552A VAL* 3.7 20.9 - - + +
1555A TRP 4.0 7.6 - - - +
1556A LEU* 3.6 27.4 - - + +
1559A THR* 3.6 27.4 - - - +
1603A LEU* 2.9 38.2 + - + +
1604A ALA* 3.3 4.0 + - - +
1606A GLN* 1.3 75.8 - - + +
1608A TYR* 1.3 57.9 + - - +
1610A GLN* 3.1 6.7 + - - +
1611A LEU* 2.8 28.1 + - - +
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Residues in contact with TYR1608 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1556A LEU* 4.1 21.7 - - + +
1604A ALA 2.9 17.7 + - - +
1605A ILE* 3.6 7.0 - - - +
1607A ILE* 1.3 76.9 - - - +
1609A GLN* 1.3 72.1 + - + +
1611A LEU* 3.1 5.5 + - + +
1612A VAL* 2.9 42.4 + - + +
1682A LEU* 3.9 14.1 - - + -
1685A GLN* 3.4 26.6 + - + +
1686A VAL* 3.7 24.1 + - + -
1689A GLN* 3.9 12.8 + - - +
1822A ILE* 4.1 15.0 - - + -
1823A PHE* 4.5 5.2 + - - +
1825A VAL* 3.7 43.9 - - + +
1827A PHE* 4.5 1.8 - - + -
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Residues in contact with GLN1609 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1605A ILE* 3.0 38.0 + - + +
1606A GLN* 3.6 17.0 - - - +
1608A TYR* 1.3 85.4 - - + +
1610A GLN* 1.3 61.1 + - - +
1612A VAL* 3.4 6.1 + - - +
1613A ARG* 3.2 50.2 + - - +
1822A ILE* 4.8 18.9 - - + +
1825A VAL* 6.1 0.4 - - + -
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Residues in contact with GLN1610 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1542A LEU* 5.6 6.7 - - + +
1546A GLY* 3.0 34.6 + - - +
1547A ASP* 4.8 1.2 - - - +
1552A VAL* 4.3 11.7 - - + -
1606A GLN 3.1 14.0 + - - +
1607A ILE* 3.1 9.4 + - - +
1609A GLN* 1.3 75.0 - - - +
1611A LEU* 1.3 64.3 + - - +
1613A ARG* 3.2 18.6 + - - +
1614A VAL* 2.9 36.1 + - - +
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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
----------------------------------------------------------
1549A PHE* 4.1 13.0 - - + +
1552A VAL* 3.6 22.3 - - + +
1553A SER* 4.0 17.3 - - - +
1556A LEU* 3.8 23.6 - - + -
1607A ILE 2.8 17.5 + - - +
1608A TYR* 3.4 11.0 - - + +
1610A GLN* 1.3 72.3 - - - +
1612A VAL* 1.3 63.5 + - + +
1614A VAL* 3.2 4.2 + - + +
1615A LEU* 3.0 49.2 + - + +
1673A MET* 4.6 4.3 - - + -
1678A MET* 4.0 12.8 - - + -
1686A VAL* 4.0 26.7 - - + -
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Residues in contact with VAL1612 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1608A TYR* 2.9 48.7 + - + +
1609A GLN* 3.7 7.9 - - - +
1610A GLN 3.3 0.2 - - - -
1611A LEU* 1.3 75.4 - - + +
1613A ARG* 1.3 59.6 + - + +
1615A LEU* 3.8 1.9 - - - +
1616A GLU* 2.8 31.7 + - - +
1686A VAL* 5.8 4.3 - - + -
1689A GLN* 3.6 31.0 - - + -
1690A MET* 3.9 14.7 - - + +
1693A ILE* 4.1 10.1 - - + -
1822A ILE* 4.2 22.2 - - + -
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Residues in contact with ARG1613 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1609A GLN* 3.2 36.9 + - - +
1610A GLN* 3.2 22.3 + - - +
1612A VAL* 1.3 80.6 - - + +
1614A VAL* 1.3 61.2 - - - +
1616A GLU* 3.7 15.7 - - - +
1617A ASN* 3.0 36.2 + - - +
1820A LYS* 6.1 1.3 - - - +
1822A ILE* 4.6 17.4 - - + +
----------------------------------------------------------
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Residues in contact with VAL1614 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1546A GLY 3.3 27.1 - - - +
1547A ASP* 3.7 23.1 - - - +
1549A PHE* 3.6 29.8 - - + +
1552A VAL* 4.6 4.7 - - + -
1610A GLN* 2.9 30.8 + - + +
1611A LEU* 3.8 5.2 - - - +
1613A ARG* 1.3 75.7 - - - +
1615A LEU* 1.3 64.1 + - - +
1617A ASN* 3.3 10.9 + - - +
1618A ILE* 3.1 29.8 + - + +
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Residues in contact with LEU1615 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1549A PHE* 4.0 22.7 - - + -
1611A LEU* 3.0 35.5 + - + +
1612A VAL* 5.0 0.2 - - - -
1614A VAL* 1.3 72.6 - - - +
1616A GLU* 1.3 66.5 + - - +
1618A ILE* 3.2 3.9 + - + +
1619A LEU* 3.0 27.4 + - - +
1669A PHE* 3.3 49.6 - - + -
1673A MET* 5.3 1.8 - - + -
1686A VAL* 3.7 30.1 - - + -
1690A MET* 3.5 28.5 - - + -
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Residues in contact with GLU1616 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1612A VAL* 2.8 20.0 + - - +
1613A ARG* 3.7 18.5 - - - +
1614A VAL 3.2 0.2 - - - -
1615A LEU* 1.3 78.7 - - - +
1617A ASN* 1.3 60.4 + - - +
1619A LEU* 3.8 4.2 - - - +
1620A GLN* 2.9 50.9 + - - +
1690A MET* 4.4 2.4 - - - -
1693A ILE* 4.1 38.6 - - + +
1697A ILE* 5.2 1.6 - - - +
1819A ALA* 4.5 7.1 - - - +
1820A LYS* 3.0 42.6 + - - +
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Residues in contact with ASN1617 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1613A ARG* 3.0 29.4 + - - +
1614A VAL* 3.6 10.8 - - - +
1615A LEU 3.3 0.2 - - - -
1616A GLU* 1.3 81.6 - - - +
1618A ILE* 1.3 64.3 + - + +
1620A GLN* 4.0 15.8 + - - +
1621A PRO* 3.3 19.2 - - - +
1820A LYS* 5.4 2.9 + - - -
----------------------------------------------------------
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Residues in contact with ILE1618 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1547A ASP 5.8 0.9 - - - +
1549A PHE* 3.9 20.2 - - + +
1614A VAL* 3.1 27.6 + - + +
1615A LEU 3.6 6.3 - - - +
1616A GLU 3.2 0.2 - - - -
1617A ASN* 1.3 79.2 - - + +
1619A LEU* 1.3 60.2 + - - +
1621A PRO* 3.3 11.3 - - - +
1622A MET* 3.6 14.7 - - + +
1665A GLN* 3.4 39.0 - - + +
1669A PHE* 3.9 20.0 - - + -
----------------------------------------------------------
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Residues in contact with LEU1619 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1615A LEU 3.0 13.7 + - - +
1616A GLU* 4.0 3.6 - - - +
1618A ILE* 1.3 76.1 - - - +
1620A GLN* 1.3 66.4 + - - +
1621A PRO 3.2 1.1 - - - -
1622A MET* 2.8 28.2 + - - +
1623A ILE* 3.4 19.1 + - + +
1662A ILE* 4.5 21.1 - - + +
1665A GLN* 3.9 29.6 - - + -
1666A LEU* 4.4 8.1 - - + -
1669A PHE* 4.0 11.7 - - + -
1690A MET* 3.7 31.9 - - + +
1693A ILE* 5.7 2.9 - - + -
1694A ILE* 4.4 21.8 - - + -
----------------------------------------------------------
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Residues in contact with GLN1620 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1616A GLU* 2.9 39.3 + - - +
1617A ASN* 4.0 17.9 + - - +
1619A LEU* 1.3 76.9 - - - +
1621A PRO* 1.4 69.9 - - + +
1622A MET 3.2 0.9 + - - -
1623A ILE* 3.5 20.2 + - - +
1624A VAL* 4.8 2.9 + - - +
1697A ILE* 3.8 25.9 - - + +
1820A LYS* 5.0 7.2 + - - +
----------------------------------------------------------
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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