Contacts of the helix formed by residues 1453 - 1476 (chain A) in PDB entry 5A31
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 ASN1453 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1397A ASP* 5.5 4.7 - - - +
1452A LEU* 1.3 83.4 + - - +
1454A LEU* 1.3 66.7 + - - +
1455A GLU* 3.1 8.5 + - + +
1456A THR* 3.2 22.5 + - - +
1457A LEU* 3.2 22.4 + - - +
71L LYS* 5.0 1.8 - - - +
133L ARG* 3.3 57.6 + - - +
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Residues in contact with LEU1454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1437A ASN* 5.2 11.9 - - + +
1452A LEU* 4.0 15.2 + - - +
1453A ASN* 1.3 73.6 - - - +
1455A GLU* 1.3 57.2 + - - +
1457A LEU* 3.8 20.5 - - + +
1458A SER* 2.7 37.4 + - - +
1506A VAL* 5.4 10.8 - - + -
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Residues in contact with GLU1455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1453A ASN* 3.1 9.1 + - + +
1454A LEU* 1.3 78.2 - - - +
1456A THR* 1.3 66.3 + - - +
1458A SER* 4.1 3.0 - - - -
1459A GLN* 3.0 47.8 + - - +
1506A VAL* 3.6 32.2 - - + +
71L LYS* 3.7 25.6 + - - +
100L ASN* 4.9 2.9 - - - +
132L THR* 6.2 0.2 - - - +
133L ARG* 3.9 10.3 + - - +
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Residues in contact with THR1456 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1393A MET 5.5 0.4 - - - +
1396A LEU* 4.2 28.2 - - + +
1397A ASP* 3.9 19.7 + - - +
1399A VAL 5.6 0.9 - - - +
1401A PRO* 5.3 5.1 - - + +
1453A ASN* 3.2 19.2 + - - +
1455A GLU* 1.3 80.0 - - - +
1457A LEU* 1.3 62.5 + - + +
1459A GLN* 3.9 10.7 - - - +
1460A ALA* 3.2 22.5 + - + +
71L LYS* 3.1 34.9 + - + +
135L PHE* 5.7 2.0 - - + -
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Residues in contact with LEU1457 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1393A MET* 5.5 4.7 - - + -
1396A LEU* 4.0 14.1 - - + -
1433A ILE* 3.9 20.0 - - + +
1434A ILE* 3.7 31.8 - - + +
1437A ASN* 3.6 41.1 - - + -
1452A LEU 5.8 4.9 - - - +
1453A ASN 3.2 14.3 + - - +
1454A LEU* 3.8 15.0 - - + +
1456A THR* 1.3 80.4 - - + +
1458A SER* 1.3 65.4 + - - +
1460A ALA* 3.3 5.3 + - - +
1461A HIS* 3.2 22.7 + - - +
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Residues in contact with SER1458 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1454A LEU* 2.7 26.7 + - - +
1455A GLU* 4.1 2.5 - - - -
1457A LEU* 1.3 73.1 - - - +
1459A GLN* 1.3 63.8 + - - +
1461A HIS* 3.4 15.3 + - - +
1462A VAL* 3.4 17.8 + - - +
1498A TYR* 5.6 3.1 - - - -
1503A ASN* 4.1 15.3 + - - -
1506A VAL* 4.9 5.4 - - - -
1507A THR* 3.7 25.6 - - - +
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Residues in contact with GLN1459 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1401A PRO* 3.6 15.1 - - + +
1455A GLU* 3.0 39.3 + - - +
1456A THR* 3.9 10.4 - - - +
1458A SER* 1.3 72.9 - - - +
1460A ALA* 1.3 66.8 + - - +
1461A HIS 3.1 0.5 + - - -
1462A VAL* 3.1 9.8 - - - +
1463A TYR* 3.0 27.2 + - + -
1506A VAL 4.2 2.6 + - - -
1507A THR* 3.4 32.9 + - - +
1508A GLY* 5.0 1.4 - - - -
1511A ASN* 3.1 25.3 + - + +
71L LYS* 4.7 4.3 - - - -
100L ASN* 2.9 27.0 + - - +
104L ASN* 5.3 1.4 - - - +
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Residues in contact with ALA1460 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1396A LEU* 4.1 8.1 - - + -
1401A PRO* 4.4 4.9 - - + +
1404A LEU* 3.6 27.6 - - + -
1434A ILE* 3.6 21.8 - - + -
1456A THR* 3.2 16.4 + - + +
1457A LEU* 3.7 4.0 - - - +
1459A GLN* 1.3 78.7 - - - +
1461A HIS* 1.3 56.4 + - - +
1463A TYR* 4.7 0.7 - - - +
1464A ILE* 2.9 38.6 + - - +
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Residues in contact with HIS1461 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1430A VAL* 3.9 27.5 - - + +
1434A ILE* 3.7 23.0 + - + +
1435A ARG* 6.1 2.2 - - - -
1457A LEU 3.2 6.9 + - - +
1458A SER* 3.5 12.3 - - - +
1459A GLN 3.1 0.6 - - - -
1460A ALA* 1.3 76.5 - - - +
1462A VAL* 1.3 70.8 + - + +
1464A ILE* 4.0 1.2 - - - +
1465A ILE* 3.1 44.4 + - + +
1498A TYR* 4.7 16.5 + + - -
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Residues in contact with VAL1462 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1458A SER* 3.6 13.0 - - - +
1459A GLN* 3.1 20.9 + - - +
1461A HIS* 1.3 83.4 - - + +
1463A TYR* 1.3 79.6 + - + +
1465A ILE* 3.1 14.4 - - + +
1466A ALA* 2.9 27.4 + - - +
1495A PHE* 4.0 9.5 - - + -
1498A TYR* 5.2 12.1 - - + -
1507A THR* 4.1 15.0 - - - +
1511A ASN* 4.8 3.1 - - + +
1512A LEU* 4.1 14.4 - - + -
1515A CYS* 3.7 26.9 - - - -
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Residues in contact with TYR1463 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1401A PRO* 3.5 39.9 - - + +
1402A GLU* 4.3 15.3 - - + +
1404A LEU* 4.8 1.8 - - + -
1405A LEU* 3.6 37.7 - - + +
1459A GLN* 3.0 21.3 + - + +
1460A ALA* 4.3 2.0 - - - +
1462A VAL* 1.3 84.7 - - + +
1464A ILE* 1.3 58.6 + - - +
1466A ALA* 3.7 3.6 - - - +
1467A GLY 2.9 23.7 + - - -
1510A HIS* 5.6 0.3 + - - -
1511A ASN* 3.4 55.0 + - + +
1514A THR* 4.0 29.5 + - + +
1515A CYS* 4.3 7.4 - - + -
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Residues in contact with ILE1464 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1389A ALA* 4.7 5.2 - - + -
1396A LEU* 5.2 0.9 - - + -
1404A LEU* 3.6 40.4 - - + -
1408A THR* 3.8 20.5 - - + +
1426A VAL 5.6 0.2 - - - +
1429A ASN* 3.9 9.0 - - + +
1430A VAL* 3.8 30.5 - - + +
1431A PRO* 4.0 12.8 - - + -
1434A ILE* 3.9 21.8 - - + -
1460A ALA 2.9 23.0 + - - +
1461A HIS* 4.0 3.1 - - - +
1463A TYR* 1.3 73.4 - - - +
1465A ILE* 1.3 67.0 + - + +
1468A ALA* 3.0 22.9 + - - +
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Residues in contact with ILE1465 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1426A VAL* 4.1 30.8 - - + +
1427A ASP* 5.4 3.8 - - - -
1430A VAL* 5.4 4.5 - - + -
1461A HIS* 3.1 36.8 + - + +
1462A VAL* 3.1 17.9 - - + +
1464A ILE* 1.3 80.0 - - + +
1466A ALA* 1.3 57.1 + - - +
1468A ALA* 3.1 1.7 + - - +
1469A CYS* 2.8 35.2 + - + +
1491A PHE* 4.1 23.3 - - + -
1495A PHE* 3.5 29.2 - - + -
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Residues in contact with ALA1466 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1405A LEU* 4.0 5.2 - - + -
1462A VAL 2.9 16.9 + - - +
1463A TYR* 3.7 4.5 - - - +
1465A ILE* 1.3 79.3 - - - +
1467A GLY* 1.3 58.2 + - - +
1469A CYS* 3.1 12.3 - - - -
1470A LEU* 2.7 31.2 + - - +
1495A PHE* 4.9 3.1 - - + -
1515A CYS* 3.7 29.2 - - + +
1518A VAL* 3.8 20.6 - - + +
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Residues in contact with GLY1467 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1405A LEU* 3.0 35.7 - - - +
1408A THR* 4.4 8.3 - - - -
1409A LEU* 3.8 8.1 - - - +
1463A TYR 2.9 13.8 + - - -
1464A ILE 4.0 0.9 - - - -
1466A ALA* 1.3 76.8 - - - +
1468A ALA* 1.3 56.5 + - - +
1470A LEU* 3.6 3.6 + - - +
1471A SER* 3.0 26.5 + - - -
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Residues in contact with ALA1468 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1408A THR* 4.1 10.9 - - + +
1412A CYS* 4.8 1.1 - - - -
1425A TRP* 3.4 16.1 - - + -
1426A VAL* 4.1 10.3 - - + +
1429A ASN* 3.6 30.7 - - + +
1464A ILE 3.0 18.8 + - - +
1465A ILE* 3.7 2.5 - - - +
1466A ALA 3.1 0.2 - - - -
1467A GLY* 1.3 75.2 - - - +
1469A CYS* 1.3 60.7 + - - +
1471A SER* 3.2 8.4 + - - -
1472A LEU 2.9 23.0 + - - -
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Residues in contact with CYS1469 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1426A VAL* 4.1 11.1 - - + +
1465A ILE 2.8 15.3 + - - +
1466A ALA* 3.1 22.7 - - - -
1468A ALA* 1.3 76.4 - - - +
1470A LEU* 1.3 58.1 + - - +
1472A LEU* 3.0 8.5 - - - +
1473A GLY 2.9 23.9 + - - -
1488A LEU* 3.4 24.4 - - + +
1491A PHE* 4.6 10.1 - - + -
1495A PHE* 5.6 1.1 - - - -
1519A VAL* 3.4 44.2 - - + -
1522A SER* 3.7 5.3 - - - -
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Residues in contact with LEU1470 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1405A LEU* 4.8 4.5 - - + -
1409A LEU* 3.3 40.6 - - + -
1466A ALA 2.7 21.0 + - - +
1467A GLY* 3.6 4.5 - - - +
1469A CYS* 1.3 74.2 - - - +
1471A SER* 1.3 58.5 + - - +
1473A GLY* 3.2 3.6 + - - -
1474A PHE* 3.1 39.4 + - + -
1518A VAL* 3.5 33.7 - - + +
1521A LEU* 5.9 2.9 - - + -
1522A SER* 2.8 20.8 + - - +
1525A MET* 5.0 6.8 - - + +
1588A LEU* 4.4 17.0 - - + +
1590A PRO* 5.1 2.7 - - + -
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Residues in contact with SER1471 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1409A LEU* 3.8 10.1 + - - -
1412A CYS* 2.9 42.3 - - - +
1413A LEU* 3.8 8.3 + - - +
1419A ILE* 4.0 8.4 - - - +
1425A TRP* 4.5 1.6 - - - -
1467A GLY 3.0 15.4 + - - -
1468A ALA* 3.2 10.0 + - - -
1470A LEU* 1.3 77.0 - - - +
1472A LEU* 1.3 67.4 + - - +
1474A PHE* 3.5 7.4 + - - +
1475A ARG* 3.2 19.9 + - - +
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Residues in contact with LEU1472 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1419A ILE* 4.0 14.4 - - + -
1420A LEU 4.0 1.8 - - - +
1421A PRO* 3.8 23.3 - - + +
1425A TRP* 4.6 3.5 - - + -
1426A VAL* 4.1 13.7 - - + -
1468A ALA 2.9 12.5 + - - +
1469A CYS 3.0 12.1 + - - +
1471A SER* 1.3 76.0 - - - +
1473A GLY* 1.3 61.4 + - - +
1475A ARG* 3.0 3.8 + - - -
1476A PHE* 2.9 61.5 + - + +
1484A ALA* 4.4 10.8 - - + -
1487A CYS* 3.6 30.7 - - - -
1488A LEU* 3.7 15.3 - - + -
1526A VAL* 4.6 0.7 - - - -
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Residues in contact with GLY1473 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1469A CYS 2.9 13.0 + - - -
1470A LEU 3.2 6.5 + - - -
1472A LEU* 1.3 72.9 - - - +
1474A PHE* 1.3 56.3 + - - -
1476A PHE 3.1 2.6 + - - -
1477A ALA* 2.9 31.9 + - - +
1488A LEU* 4.4 0.2 - - - +
1522A SER* 3.9 16.6 - - - -
1525A MET* 4.1 7.0 - - - -
1526A VAL* 3.6 21.0 - - - +
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Residues in contact with PHE1474 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1409A LEU* 4.8 2.9 - - + -
1413A LEU* 4.1 16.8 - - + -
1416A TRP* 3.7 6.0 - - + -
1470A LEU* 3.1 49.3 + - + -
1471A SER* 3.8 8.5 - - - +
1472A LEU 3.4 0.4 - - - -
1473A GLY* 1.3 73.3 - - - +
1475A ARG* 1.3 59.4 + - - +
1477A ALA* 3.9 4.0 + - - +
1525A MET* 4.1 19.5 - - + -
1576A THR* 3.1 26.0 - - - +
1581A ILE* 3.8 32.7 - - + +
1584A LEU* 3.5 37.6 - - + +
1585A LEU* 3.3 36.6 - - + -
1588A LEU* 4.7 6.1 - - + -
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Residues in contact with ARG1475 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1416A TRP* 3.2 60.8 + - + +
1419A ILE* 3.8 29.0 + - + -
1471A SER 3.2 2.8 + - - +
1472A LEU 3.0 5.2 + - - +
1474A PHE* 1.3 80.7 - - - +
1476A PHE* 1.3 97.6 + - + +
1477A ALA 3.2 3.4 + - - +
1479A SER* 4.8 1.9 + - - -
1576A THR* 3.9 9.0 - - - +
1643A TRP* 3.4 44.6 - - - -
1644A TYR* 5.2 6.3 + - - -
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Residues in contact with PHE1476 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1419A ILE* 4.1 9.2 - - + -
1421A PRO* 3.7 25.8 - - + -
1472A LEU* 2.9 40.1 + - + +
1473A GLY 3.4 2.7 - - - -
1475A ARG* 1.3 116.2 - - + +
1477A ALA* 1.3 65.6 + - - +
1479A SER* 3.2 18.7 + - - +
1481A ASN* 3.4 35.4 - - + -
1484A ALA* 4.3 9.4 - - + -
1526A VAL* 2.9 30.3 - - + +
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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