Contacts of the helix formed by residues 1587 - 1614 (chain D) in PDB entry 4LX0
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 LEU1587 (chain D).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1509D ILE* 3.9 22.9 - - + -
1521D VAL* 3.6 24.2 - - + -
1525D LEU* 4.1 13.2 - - + -
1560D LEU* 4.2 12.1 - - + -
1582D LEU* 3.8 30.9 - - + +
1585D PHE* 3.8 21.7 + - + +
1586D ASP* 1.3 75.1 + - - +
1588D THR* 1.3 63.8 + - - +
1589D GLU 3.1 3.1 - - - +
1590D TYR* 3.0 33.8 + - + +
1591D ARG* 3.0 25.7 + - + +
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Residues in contact with THR1588 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1586D ASP* 2.8 30.2 + - - -
1587D LEU* 1.3 75.7 - - - +
1589D GLU* 1.3 69.3 + - + +
1591D ARG* 3.2 34.2 + - - +
1592D GLN* 3.1 22.4 + - + +
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Residues in contact with GLU1589 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1586D ASP 5.0 0.8 + - - -
1587D LEU 3.1 0.8 - - - -
1588D THR* 1.3 82.1 - - + +
1590D TYR* 1.3 72.7 + - + +
1592D GLN* 3.5 7.9 + - + +
1593D VAL* 3.3 27.5 + - - +
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Residues in contact with TYR1590 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1521D VAL* 5.1 2.2 - - + -
1522D HIS* 2.6 42.1 + + - +
1525D LEU* 3.7 48.0 - - + -
1526D THR* 4.3 13.5 - - - -
1529D ILE* 5.1 8.6 - - + +
1560D LEU* 5.0 3.1 - - + -
1587D LEU* 3.0 36.4 + - + +
1589D GLU* 1.3 83.6 - - + +
1591D ARG* 1.3 63.9 + - - +
1593D VAL* 3.3 9.8 + - + +
1594D LEU* 3.0 28.5 + - - +
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Residues in contact with ARG1591 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1557D LEU* 3.7 16.9 - - + +
1560D LEU* 3.8 35.4 + - + +
1561D LYS* 3.8 26.6 - - - +
1564D SER* 4.1 18.8 - - - +
1566D ASP* 5.4 2.8 + - - +
1569D PHE* 4.1 23.1 - - - -
1586D ASP* 4.5 3.4 + - - -
1587D LEU* 3.0 18.0 + - + +
1588D THR* 3.2 48.6 + - - +
1590D TYR* 1.3 77.7 - - - +
1592D GLN* 1.3 57.4 + - - +
1594D LEU* 3.3 4.8 + - - +
1595D SER* 2.9 30.2 + - - -
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Residues in contact with GLN1592 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1588D THR* 3.1 14.1 + - + +
1589D GLU* 3.8 10.3 - - + +
1590D TYR 3.2 0.2 - - - -
1591D ARG* 1.3 77.6 - - - +
1593D VAL* 1.3 59.1 + - + +
1595D SER* 3.1 14.0 + - - -
1596D ASP* 2.9 48.4 + - - +
----------------------------------------------------------
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Residues in contact with VAL1593 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1529D ILE* 3.7 35.0 - - + -
1533D LYS* 6.0 2.2 - - - +
1589D GLU 3.3 15.3 + - - +
1590D TYR* 3.6 11.4 - - + +
1591D ARG 3.3 0.2 - - - -
1592D GLN* 1.3 79.7 - - + +
1594D LEU* 1.3 57.3 + - - +
1596D ASP* 3.3 14.6 + - + +
1597D LEU* 2.9 26.3 + - + +
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Residues in contact with LEU1594 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1525D LEU* 4.5 6.7 - - + -
1528D THR* 6.1 0.4 - - + -
1529D ILE* 3.9 28.9 - - + -
1532D ILE* 5.8 3.1 - - + -
1553D THR* 3.8 20.6 - - + +
1556D LEU* 4.1 28.9 - - + -
1557D LEU* 4.5 20.8 - - + +
1560D LEU* 3.4 32.3 - - + -
1590D TYR 3.0 19.0 + - - +
1591D ARG* 3.8 5.6 - - - +
1593D VAL* 1.3 73.1 - - - +
1595D SER* 1.3 61.2 + - - +
1597D LEU* 3.4 9.1 + - + +
1598D SER* 3.0 28.9 + - - -
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Residues in contact with SER1595 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1557D LEU* 4.1 15.1 - - - +
1591D ARG 2.9 14.1 + - - -
1592D GLN* 3.2 21.3 + - - -
1594D LEU* 1.3 73.9 - - - +
1596D ASP* 1.3 66.3 + - - +
1598D SER* 2.8 24.8 + - - -
1599D ILE* 3.3 17.8 + - - +
1822D PHE* 5.8 2.6 - - - -
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Residues in contact with ASP1596 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1592D GLN* 2.9 36.4 + - - +
1593D VAL* 3.4 17.7 - - + +
1595D SER* 1.3 74.5 - - - +
1597D LEU* 1.3 62.8 + - - +
1599D ILE* 3.1 24.7 + - - +
1600D GLN* 3.2 23.6 + - - +
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Residues in contact with LEU1597 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1529D ILE* 4.3 23.6 - - + -
1532D ILE* 4.1 24.2 - - + -
1533D LYS* 3.9 28.9 - - + +
1536D LEU* 5.1 2.0 - - + -
1553D THR* 4.1 15.5 - - + +
1593D VAL* 2.9 17.8 + - + +
1594D LEU* 3.7 15.3 - - + +
1595D SER 3.3 0.2 - - - -
1596D ASP* 1.3 76.0 - - - +
1598D SER* 1.3 56.5 + - - +
1600D GLN* 3.2 20.3 + - + +
1601D ILE* 2.9 51.8 + - + +
----------------------------------------------------------
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Residues in contact with SER1598 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1550D LEU* 3.5 9.2 - - - +
1553D THR* 4.0 16.6 - - - -
1554D CYS* 4.2 15.9 - - - -
1557D LEU* 5.1 4.6 - - - +
1594D LEU 3.0 14.1 + - - -
1595D SER* 2.8 21.5 + - - -
1597D LEU* 1.3 77.1 - - - +
1599D ILE* 1.3 57.2 + - - +
1601D ILE* 4.4 1.3 - - - +
1602D TYR* 3.0 28.2 + - - +
1822D PHE* 3.4 27.9 - - - -
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Residues in contact with ILE1599 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1595D SER* 3.6 19.3 - - - +
1596D ASP* 3.1 17.0 + - - +
1598D SER* 1.3 74.7 + - - +
1600D GLN* 1.3 60.7 + - + +
1602D TYR* 3.3 3.9 + - - +
1603D GLN* 2.8 59.3 + - + +
1820D VAL* 5.4 10.1 - - + +
1822D PHE* 3.9 21.3 - - + -
----------------------------------------------------------
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Residues in contact with GLN1600 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1533D LYS* 3.6 33.7 - - - +
1596D ASP* 3.2 18.5 + - - +
1597D LEU* 3.2 22.2 + - + +
1599D ILE* 1.3 78.4 - - + +
1601D ILE* 1.3 63.5 + - + +
1603D GLN* 3.3 13.8 + - - +
1604D GLN* 3.0 22.3 + - - +
----------------------------------------------------------
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Residues in contact with ILE1601 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1532D ILE* 4.2 4.0 - - + -
1536D LEU* 3.2 33.2 - - + -
1546D THR* 3.3 31.5 - - + +
1549D TRP 3.7 10.5 - - - +
1550D LEU* 3.6 16.2 - - + -
1553D THR* 3.4 29.6 - - + +
1597D LEU* 2.9 37.2 + - + +
1598D SER* 4.0 4.5 - - - +
1599D ILE 3.2 0.2 - - - -
1600D GLN* 1.3 75.7 - - + +
1602D TYR* 1.3 58.3 + - - +
1604D GLN* 3.1 7.9 + - - +
1605D LEU* 2.9 23.6 + - - +
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Residues in contact with TYR1602 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1550D LEU* 4.1 12.2 - - + +
1598D SER 3.0 19.7 + - - +
1599D ILE* 3.6 3.6 - - - +
1601D ILE* 1.3 76.8 - - - +
1603D GLN* 1.3 68.7 + - + +
1605D LEU* 3.0 8.7 + - + +
1606D ILE* 2.9 45.6 + - + +
1677D ILE* 4.0 22.0 - - + -
1680D GLN* 3.5 28.0 + - + +
1681D VAL* 3.8 22.9 - - + -
1684D GLN* 4.2 5.9 + - - +
1817D MET* 3.8 14.6 - - + -
1818D PHE* 4.8 3.5 + - - +
1820D VAL* 3.0 43.4 - - + +
1822D PHE* 4.1 8.1 - + + -
----------------------------------------------------------
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Residues in contact with GLN1603 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1599D ILE* 2.8 39.6 + - + +
1600D GLN* 3.8 12.1 - - - +
1601D ILE 3.2 0.4 - - - -
1602D TYR* 1.3 81.4 - - + +
1604D GLN* 1.3 57.8 + - - +
1606D ILE* 3.5 5.3 + - - +
1607D LYS* 2.9 29.5 + - - +
1817D MET* 4.2 27.1 - - + +
1820D VAL* 5.8 0.8 - - + +
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Residues in contact with GLN1604 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1536D LEU* 3.2 45.4 + - - +
1537D LYS* 5.3 0.5 - - - -
1539D HIS 3.7 1.4 + - - -
1540D ASN* 3.7 29.3 + - - +
1546D THR* 2.9 24.4 + - + +
1600D GLN 3.0 13.8 + - - +
1601D ILE* 3.1 10.1 + - - +
1603D GLN* 1.3 77.2 - - - +
1605D LEU* 1.3 62.2 + - - +
1607D LYS* 3.3 16.3 + - + +
1608D ILE* 2.9 26.5 + - + +
----------------------------------------------------------
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Residues in contact with LEU1605 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1543D PHE* 3.2 50.2 - - + +
1546D THR* 3.6 10.7 - - + +
1547D SER* 3.8 17.0 - - - +
1550D LEU* 4.0 23.3 - - + -
1601D ILE 2.9 13.1 + - - +
1602D TYR* 3.4 10.8 - - + +
1604D GLN* 1.3 75.7 - - - +
1606D ILE* 1.3 63.7 + - + +
1608D ILE* 3.2 5.6 + - - +
1609D ALA* 3.0 22.9 + - - +
1668D MET* 4.2 23.3 - - - -
1673D LEU* 4.5 3.6 - - + -
1681D VAL* 4.2 15.3 - - + -
----------------------------------------------------------
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Residues in contact with ILE1606 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1602D TYR* 2.9 54.5 + - + +
1603D GLN 3.8 5.8 - - - +
1605D LEU* 1.3 72.1 - - + +
1607D LYS* 1.3 68.1 + - - +
1608D ILE 3.1 0.2 + - - -
1609D ALA* 3.2 3.6 + - + +
1610D GLU* 2.9 52.2 + - + +
1681D VAL* 4.1 25.1 - - + +
1684D GLN* 3.7 24.0 - - + -
1685D LEU* 4.8 4.5 - - + -
1817D MET* 3.8 19.1 - - + -
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Residues in contact with LYS1607 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1540D ASN* 2.9 41.0 + - - +
1541D ASP* 4.3 10.7 + - - -
1603D GLN 2.9 15.1 + - - +
1604D GLN* 3.4 18.1 + - - +
1606D ILE* 1.3 77.0 - - - +
1608D ILE* 1.3 74.1 + - - +
1610D GLU* 4.1 4.6 - - - +
1611D GLY* 3.0 20.4 + - - -
1817D MET* 5.7 0.2 - - - -
----------------------------------------------------------
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Residues in contact with ILE1608 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1540D ASN 3.5 25.8 - - - +
1541D ASP* 3.9 21.8 - - - +
1542D ASP 3.6 16.8 - - - +
1543D PHE* 3.9 24.9 - - + +
1546D THR* 3.3 29.2 - - + +
1604D GLN* 2.9 20.2 + - + +
1605D LEU* 3.6 6.7 - - - +
1606D ILE 3.2 0.2 - - - -
1607D LYS* 1.3 80.0 - - - +
1609D ALA* 1.3 68.8 + - - +
1611D GLY* 3.2 2.6 + - - -
1612D VAL* 3.1 30.8 + - + +
1664D PHE* 5.4 0.2 - - + -
----------------------------------------------------------
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Residues in contact with ALA1609 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1543D PHE* 4.1 11.7 - - + -
1605D LEU* 3.0 16.6 + - + +
1606D ILE* 3.8 3.1 - - - +
1608D ILE* 1.3 78.1 - - - +
1610D GLU* 1.3 62.1 + - - +
1612D VAL* 3.0 5.2 + - - +
1613D LEU* 3.0 25.1 + - - +
1664D PHE* 3.7 27.8 - - + -
1681D VAL* 5.5 2.7 - - + -
1685D LEU* 3.7 26.2 - - + -
----------------------------------------------------------
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Residues in contact with GLU1610 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1606D ILE* 2.9 38.0 + - + +
1607D LYS* 4.2 4.1 - - - +
1609D ALA* 1.3 74.8 - - - +
1611D GLY* 1.3 58.3 + - - +
1613D LEU* 4.4 0.9 - - - +
1614D GLN* 2.8 34.8 + - - +
1684D GLN* 3.9 20.8 + - - +
1685D LEU* 3.7 14.1 - - + -
1688D MET* 3.6 48.5 - - + +
1814D ALA 4.4 8.5 - - - +
1815D LYS* 4.9 7.8 - - - +
1817D MET* 5.5 2.2 - - - +
----------------------------------------------------------
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Residues in contact with GLY1611 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1607D LYS 3.0 16.1 + - - -
1608D ILE* 3.2 4.4 + - - -
1610D GLU* 1.3 77.7 - - - +
1612D VAL* 1.3 61.2 + - - +
1614D GLN* 4.0 4.6 - - - +
1615D PRO* 3.5 16.8 - - - +
----------------------------------------------------------
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Residues in contact with VAL1612 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1608D ILE* 3.1 22.4 + - + +
1609D ALA 3.0 8.7 + - - +
1611D GLY* 1.3 80.3 - - - +
1613D LEU* 1.3 61.7 + - - +
1614D GLN 3.5 0.3 + - - -
1615D PRO* 3.6 13.9 - - - +
1616D MET* 3.8 11.4 - - - +
1660D GLN* 3.6 39.7 - - + +
1664D PHE* 3.9 11.9 - - + -
----------------------------------------------------------
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Residues in contact with LEU1613 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1609D ALA 3.0 16.8 + - - +
1610D GLU* 4.1 4.7 - - - +
1612D VAL* 1.3 76.1 - - - +
1614D GLN* 1.3 67.1 + - - +
1615D PRO 3.4 0.2 - - - -
1616D MET* 3.0 23.4 + - - +
1617D ILE* 3.3 18.4 + - + +
1657D ILE* 4.1 24.7 - - + +
1660D GLN* 3.8 29.4 - - + -
1661D MET* 4.3 13.9 - - + -
1664D PHE* 4.1 9.9 - - + -
1685D LEU* 4.0 37.7 - - + +
1688D MET* 4.7 7.6 - - - -
1689D ILE* 5.5 4.7 - - + -
----------------------------------------------------------
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Residues in contact with GLN1614 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1610D GLU 2.8 17.6 + - - +
1611D GLY* 4.0 5.4 - - - +
1613D LEU* 1.3 76.6 - - - +
1615D PRO* 1.3 71.2 - - + +
1616D MET 3.0 5.2 + - - -
1617D ILE* 3.3 15.5 + - - +
1618D VAL* 4.8 1.9 + - - +
1688D MET* 3.1 25.4 - - + +
1692D VAL* 4.2 24.2 - - - +
1814D ALA* 5.9 0.5 - - - +
----------------------------------------------------------
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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