Contacts of the helix formed by residues 1430 - 1457 (chain A) in PDB entry 2XKK
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 ALA1430 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1426A LEU 4.4 0.4 + - - -
1427A ARG 3.4 18.2 + - - +
1428A HIS 2.7 10.3 + - - +
1429A LEU* 1.3 75.0 - - - +
1431A LYS* 1.3 66.4 + - - +
1432A LEU* 3.1 12.4 + - + +
1433A GLU* 3.2 7.4 + - + +
1434A GLU* 3.2 18.5 + - - +
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Residues in contact with LYS1431 (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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1429A LEU 3.5 2.4 + - - -
1430A ALA* 1.3 71.5 - - - +
1432A LEU* 1.3 65.7 + - + +
1434A GLU* 3.4 25.5 + - - +
1435A MET* 3.4 9.7 + - - +
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Residues in contact with LEU1432 (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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1430A ALA* 3.1 7.5 - - + +
1431A LYS* 1.3 77.0 - - + +
1433A GLU* 1.3 55.7 + - - +
1434A GLU 2.7 15.9 + - - -
1435A MET* 3.2 3.9 + - - +
1436A GLU* 3.1 19.6 + - - +
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Residues in contact with GLU1433 (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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1387A TYR* 4.3 4.2 + - - -
1427A ARG 4.5 5.4 - - - +
1428A HIS* 3.8 35.9 - - + +
1430A ALA* 3.2 6.1 + - + +
1432A LEU* 1.3 77.4 - - - +
1434A GLU* 1.3 60.7 + - - +
1436A GLU* 3.9 12.4 - - - +
1437A ILE* 3.6 22.9 + - - +
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Residues in contact with GLU1434 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1384A LEU* 5.7 4.7 - - + +
1387A TYR* 3.1 67.2 - - + +
1388A LEU* 6.0 0.7 - - - +
1429A LEU 4.7 2.9 - - - +
1430A ALA 3.2 5.7 + - - +
1431A LYS* 3.4 20.9 - - - +
1432A LEU 2.7 6.1 + - - -
1433A GLU* 1.3 70.9 - - - +
1435A MET* 1.3 59.7 + - - +
1436A GLU 2.8 8.7 + - - -
1437A ILE* 2.9 25.0 + - + +
1438A ARG* 3.4 4.9 + - - +
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Residues in contact with MET1435 (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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1431A LYS 3.4 6.8 + - - +
1432A LEU* 3.2 6.5 + - - +
1434A GLU* 1.3 79.8 - - - +
1436A GLU* 1.3 61.2 + - - +
1438A ARG* 3.5 18.4 + - - +
1439A HIS* 3.6 11.3 + - - +
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Residues in contact with GLU1436 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1432A LEU 3.1 15.6 + - - +
1433A GLU* 3.9 14.6 - - - +
1434A GLU 2.8 2.0 + - - -
1435A MET* 1.3 74.3 - - - +
1437A ILE* 1.3 59.7 - - + +
1438A ARG 3.1 8.6 + - - -
1439A HIS* 3.5 5.7 + - - +
1440A GLU* 3.4 19.2 + - - +
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Residues in contact with ILE1437 (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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1376A ARG* 5.3 2.2 - - - +
1380A LEU* 4.2 20.3 - - + +
1383A LEU* 4.0 35.7 - - + -
1384A LEU* 4.3 18.5 - - + +
1387A TYR* 4.2 18.4 - - + +
1424A LEU* 6.3 0.7 - - + -
1433A GLU* 3.6 13.9 - - + +
1434A GLU* 2.9 16.8 + - + +
1436A GLU* 1.3 76.2 - - + +
1438A ARG* 1.3 59.2 + - - +
1439A HIS 3.6 0.2 - - - -
1440A GLU* 4.0 24.0 - - - +
1441A GLN* 4.1 9.7 + - - +
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Residues in contact with ARG1438 (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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1384A LEU* 4.3 19.5 - - + -
1434A GLU 3.4 4.4 + - - +
1435A MET* 3.7 17.5 - - - +
1436A GLU 3.1 1.0 - - - -
1437A ILE* 1.3 78.8 - - - +
1439A HIS* 1.3 62.2 + - - +
1440A GLU 3.3 0.2 - - - -
1441A GLN* 3.1 22.3 - - - +
1442A ASP* 3.6 8.8 + - - +
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Residues in contact with HIS1439 (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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1435A MET 3.6 7.8 + - - +
1436A GLU* 3.5 7.7 + - - +
1438A ARG* 1.3 75.6 - - - +
1440A GLU* 1.3 54.9 + - - +
1441A GLN 2.8 4.9 - - - -
1442A ASP* 2.5 50.5 + - + +
1443A GLU* 2.9 42.7 + - + +
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Residues in contact with GLU1440 (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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1376A ARG* 2.6 42.6 + - - -
1380A LEU* 3.6 12.6 - - + -
1436A GLU 3.4 13.2 + - - +
1437A ILE* 4.0 21.1 - - - +
1438A ARG 3.3 0.2 - - - -
1439A HIS* 1.3 83.5 - - - +
1441A GLN* 1.3 58.8 + - - +
1443A GLU* 4.4 8.5 - - - +
1444A LEU* 3.0 37.2 + - + +
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Residues in contact with GLN1441 (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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1377A LEU* 3.7 26.0 + - + +
1380A LEU* 4.1 10.5 - - + +
1381A ALA* 4.1 24.4 - - - +
1384A LEU* 3.5 28.3 - - - +
1437A ILE 4.1 5.9 + - - +
1438A ARG 3.1 17.5 + - - +
1439A HIS 2.8 0.8 + - - -
1440A GLU* 1.3 78.3 - - - +
1442A ASP* 1.3 58.8 + - - +
1444A LEU* 3.4 1.4 + - - +
1445A SER* 2.9 37.4 + - - +
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Residues in contact with ASP1442 (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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1438A ARG 3.7 10.4 - - - +
1439A HIS* 2.5 37.2 + - + +
1441A GLN* 1.3 70.3 - - - +
1443A GLU* 1.3 70.4 + - - +
1445A SER* 3.2 3.7 + - - -
1446A ALA* 3.1 20.7 + - - +
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Residues in contact with GLU1443 (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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1439A HIS* 2.9 42.0 + - + +
1440A GLU* 4.4 8.6 - - - +
1442A ASP* 1.3 76.2 - - - +
1444A LEU* 1.3 72.5 + - + +
1446A ALA* 2.9 8.8 + - - +
1447A LYS* 2.8 25.9 + - + +
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Residues in contact with LEU1444 (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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1373A ILE* 3.4 32.1 - - + +
1376A ARG* 3.4 34.8 - - + +
1377A LEU* 3.4 29.2 - - + -
1380A LEU* 4.2 3.8 - - + -
1440A GLU* 3.0 35.0 + - + +
1441A GLN 3.5 0.4 - - - +
1442A ASP 3.3 0.6 - - - -
1443A GLU* 1.3 85.1 - - + +
1445A SER* 1.3 58.6 + - - +
1447A LYS* 3.4 5.5 + - - +
1448A ALA 3.0 22.3 + - - -
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Residues in contact with SER1445 (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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1377A LEU* 3.1 28.9 - - - +
1441A GLN* 2.9 23.3 + - - +
1442A ASP* 3.9 3.6 - - - -
1444A LEU* 1.3 71.2 - - - +
1446A ALA* 1.3 62.5 + - - +
1448A ALA* 3.7 4.7 + - - +
1449A ALA* 3.4 18.5 + - - +
1452A ARG* 4.6 2.4 + - - -
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Residues in contact with ALA1446 (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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1442A ASP 3.1 11.0 + - - +
1443A GLU* 2.9 9.9 + - - +
1445A SER* 1.3 73.6 - - - +
1447A LYS* 1.3 68.4 + - - +
1448A ALA 3.0 1.3 - - - -
1449A ALA* 3.0 8.4 + - - +
1450A ILE* 3.0 34.6 + - + +
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Residues in contact with LYS1447 (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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1373A ILE* 4.2 13.9 - - + -
1443A GLU 2.8 17.7 + - - +
1444A LEU* 3.5 7.9 - - + +
1446A ALA* 1.3 76.0 - - - +
1448A ALA* 1.3 61.1 + - - +
1450A ILE* 3.6 17.5 - - + +
1451A ILE* 3.2 28.0 + - + +
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Residues in contact with ALA1448 (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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1370A LEU* 4.1 8.6 - - + +
1373A ILE* 4.1 17.2 - - + +
1374A GLU* 6.0 0.7 - - + -
1377A LEU* 4.8 4.0 - - + -
1444A LEU 3.0 16.7 + - - +
1445A SER* 3.7 8.7 - - - +
1446A ALA 3.0 0.6 - - - -
1447A LYS* 1.3 74.7 - - - +
1449A ALA* 1.3 59.4 + - - +
1451A ILE* 3.1 7.2 + - - +
1452A ARG* 2.9 59.4 + - - +
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Residues in contact with ALA1449 (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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1445A SER 3.4 10.4 + - - +
1446A ALA* 3.0 10.9 + - - +
1448A ALA* 1.3 78.1 - - - +
1450A ILE* 1.3 64.4 + - + +
1451A ILE 2.9 1.6 + - - -
1452A ARG* 3.5 14.8 - - - +
1453A GLU* 3.0 26.2 + - - +
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Residues in contact with ILE1450 (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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1446A ALA* 3.0 22.0 - - + +
1447A LYS* 3.6 17.9 - - + +
1449A ALA* 1.3 74.9 - - + +
1451A ILE* 1.3 58.6 + - + +
1453A GLU* 3.5 13.3 - - + +
1454A GLN* 3.1 37.4 - - + +
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Residues in contact with ILE1451 (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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1366A LEU* 3.8 23.3 - - + +
1369A HIS* 4.0 12.3 - - + -
1370A LEU* 3.8 37.9 - - + +
1373A ILE* 3.9 20.9 - - + -
1447A LYS* 3.2 11.5 + - + +
1448A ALA* 3.1 8.9 + - - +
1449A ALA 3.0 1.0 - - - -
1450A ILE* 1.3 76.8 - - + +
1452A ARG* 1.3 60.0 + - - +
1453A GLU 3.0 4.5 - - - -
1454A GLN* 2.8 27.3 + - - +
1455A LEU* 3.0 31.6 + - + +
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Residues in contact with ARG1452 (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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1370A LEU* 3.7 20.2 - - + +
1374A GLU* 3.5 28.9 + - - +
1377A LEU* 6.1 1.2 - - - +
1445A SER 4.6 3.0 + - - -
1448A ALA* 2.9 51.5 + - - +
1449A ALA* 3.5 16.6 - - - +
1451A ILE* 1.3 74.6 - - + +
1453A GLU* 1.3 57.4 + - - +
1455A LEU* 3.8 13.2 - - + +
1456A GLU* 2.9 48.3 + - - +
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Residues in contact with GLU1453 (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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1449A ALA 3.0 16.0 + - - +
1450A ILE* 3.5 15.5 - - + +
1452A ARG* 1.3 77.2 - - - +
1454A GLN* 1.3 71.9 + - + +
1456A GLU* 3.1 6.9 + - - +
1457A ASN* 3.0 32.2 + - - +
1460A SER* 2.6 29.9 + - - -
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Residues in contact with GLN1454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1366A LEU* 3.2 34.7 - - + +
1450A ILE* 3.1 33.6 + - + +
1451A ILE* 2.8 10.9 + - - +
1453A GLU* 1.3 88.4 - - + +
1455A LEU* 1.3 60.1 - - - +
1457A ASN 3.5 13.7 - - - +
1460A SER* 3.6 20.1 + - - +
1461A LEU* 3.9 16.9 - - + +
1464A LEU* 3.5 31.5 - - + +
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Residues in contact with LEU1455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1363A THR* 4.9 10.5 - - + +
1366A LEU* 4.0 22.2 - - + +
1367A GLN* 3.8 31.6 - - + +
1370A LEU* 4.7 10.3 - - + -
1451A ILE* 3.0 47.5 + - + +
1452A ARG* 3.8 11.2 - - + +
1453A GLU 3.3 0.2 - - - -
1454A GLN* 1.3 76.5 - - - +
1456A GLU* 1.3 66.9 + - - +
1457A ASN 3.1 4.2 + - - -
1458A PRO* 4.4 4.3 - - - +
1461A LEU* 5.4 4.8 - - - +
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Residues in contact with GLU1456 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1452A ARG* 2.9 37.1 + - - +
1453A GLU* 3.1 9.2 + - - +
1455A LEU* 1.3 82.7 - - - +
1457A ASN* 1.3 58.1 + - + +
1458A PRO* 3.2 11.0 - - - +
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Residues in contact with ASN1457 (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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1453A GLU* 3.0 22.9 + - - +
1454A GLN 3.5 6.0 - - - +
1455A LEU 3.1 1.5 + - - -
1456A GLU* 1.3 79.0 - - + +
1458A PRO* 1.3 66.2 - - - +
1459A GLU* 2.8 23.2 + - - +
1460A SER* 2.9 33.0 + - - +
1461A LEU 3.2 7.4 + - - -
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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