Contacts of the helix formed by residues 1500 - 1523 (chain B) in PDB entry 2IUK
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 VAL1500 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1499B GLY* 1.3 77.4 - - - +
1501B ASP* 1.3 72.9 + - - +
1502B SER* 3.0 4.1 + - - +
1503B THR* 3.0 22.2 - - + +
1504B ILE* 2.9 30.4 + - + +
1749B TYR* 3.6 29.2 - - + +
1752B MET* 4.0 22.7 - - + -
1753B VAL* 4.3 25.5 - - + +
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Residues in contact with ASP1501 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1494B LEU 5.0 1.2 - - - +
1496B ALA* 3.1 25.0 - - + +
1498B GLU 4.3 2.9 - - - +
1499B GLY 2.7 13.9 + - - +
1500B VAL* 1.3 83.8 - - - +
1502B SER* 1.3 58.3 + - - +
1504B ILE* 3.7 18.4 - - + +
1505B TRP* 3.2 17.2 + - - +
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Residues in contact with SER1502 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1496B ALA 3.4 13.4 - - - +
1497B THR 3.7 9.6 + - - -
1498B GLU* 3.5 28.2 + - - -
1499B GLY* 3.3 15.2 + - - -
1500B VAL 3.0 2.2 + - - -
1501B ASP* 1.3 76.0 - - - +
1503B THR* 1.3 63.7 + - - +
1505B TRP* 3.3 4.9 + - - +
1506B LEU* 3.2 25.4 + - - +
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Residues in contact with THR1503 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1500B VAL* 3.0 30.7 - - + +
1502B SER* 1.3 79.3 + - - +
1504B ILE* 1.3 61.6 + - - +
1506B LEU* 3.8 14.4 - - - +
1507B LEU* 3.2 30.4 + - - +
1752B MET* 3.6 38.0 - - + +
1753B VAL* 5.5 0.4 - - - -
1756B PRO* 3.8 31.7 + - + +
1759B ALA* 4.6 0.2 - - - +
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Residues in contact with ILE1504 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1493B VAL* 4.3 24.0 - - + -
1500B VAL* 2.9 25.3 + - + +
1501B ASP* 3.8 18.4 - - + +
1502B SER 3.3 0.4 - - - -
1503B THR* 1.3 77.1 - - - +
1505B TRP* 1.3 56.6 + - + +
1507B LEU* 3.4 6.1 - - + +
1508B ALA* 3.1 24.6 + - - +
1741B ILE* 3.8 29.8 - - + +
1742B PRO* 4.3 4.9 - - + +
1749B TYR* 4.9 4.3 - - + -
1752B MET* 3.3 36.1 - - + -
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Residues in contact with TRP1505 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1367B ASP* 3.4 29.2 - - - -
1370B PHE* 4.1 6.5 - + - -
1471B PRO* 3.3 36.3 - - + -
1473B ALA 4.4 5.6 - - - -
1474B ILE* 3.9 20.6 - - + -
1493B VAL* 3.0 37.0 + - + +
1494B LEU 2.8 24.8 - - - -
1495B PRO* 3.7 21.8 - - + -
1496B ALA 4.3 11.4 - - - +
1501B ASP 3.2 16.2 + - - +
1502B SER 3.3 5.6 + - - +
1503B THR 3.3 0.4 - - - -
1504B ILE* 1.3 71.5 - - + +
1506B LEU* 1.3 59.2 + - - +
1507B LEU 3.1 4.7 - - - -
1508B ALA* 3.3 2.5 + - - +
1509B LYS* 3.0 70.7 + - + +
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Residues in contact with LEU1506 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1310B PHE* 4.7 12.1 - - + -
1364B VAL* 4.4 11.7 - - + -
1365B MET* 4.0 28.5 - - + -
1502B SER 3.2 13.3 + - - +
1503B THR* 3.8 18.2 - - - +
1504B ILE 3.4 0.2 - - - -
1505B TRP* 1.3 78.6 - - - +
1507B LEU* 1.3 58.6 + - - +
1509B LYS* 3.8 25.9 - - + +
1510B ALA 3.3 11.6 + - - -
1756B PRO* 5.2 5.6 - - + +
1760B TYR* 3.3 44.1 + - + +
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Residues in contact with LEU1507 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1503B THR* 3.2 26.4 + - - +
1504B ILE* 3.4 11.4 - - + +
1506B LEU* 1.3 76.6 - - + +
1508B ALA* 1.3 64.0 + - - +
1510B ALA* 3.1 14.3 + - - +
1511B HIS* 3.2 19.6 + - + -
1740B PHE 5.5 0.4 - - - +
1741B ILE* 3.6 14.6 - - + -
1742B PRO* 4.1 14.6 - - + -
1752B MET* 3.4 32.1 - - + -
1759B ALA* 4.4 2.5 - - + -
1760B TYR* 4.0 39.0 - - + +
1763B THR* 4.2 21.9 + - + +
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Residues in contact with ALA1508 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1474B ILE* 3.7 16.8 - - + -
1476B LEU* 3.9 18.1 - - + +
1493B VAL* 3.3 33.4 - - + -
1504B ILE 3.1 9.1 + - - +
1505B TRP 3.3 7.6 + - - +
1507B LEU* 1.3 75.9 - - - +
1509B LYS* 1.3 56.5 - - - +
1511B HIS* 3.5 6.1 + - - +
1512B VAL* 3.1 28.2 + - - +
1741B ILE* 3.8 4.8 - - - +
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Residues in contact with LYS1509 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1364B VAL 5.0 1.2 + - - -
1365B MET* 3.0 33.5 + - - +
1366B THR 4.1 1.6 - - - -
1367B ASP* 3.1 18.1 + - - +
1370B PHE* 3.9 24.9 - - + +
1474B ILE* 3.7 11.7 - - + -
1505B TRP* 3.0 58.7 + - + +
1506B LEU* 3.8 23.7 - - + +
1508B ALA* 1.3 77.2 - - - +
1510B ALA* 1.3 53.4 + - - +
1512B VAL* 3.1 5.5 + - - +
1513B ILE* 2.8 36.9 + - + +
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Residues in contact with ALA1510 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1506B LEU 3.3 12.9 + - - +
1507B LEU* 3.1 12.5 + - - +
1509B LYS* 1.3 76.4 - - - +
1511B HIS* 1.3 56.3 + - + +
1513B ILE* 3.0 5.6 + - - +
1514B VAL* 2.8 39.6 + - - +
1734B PRO* 3.9 8.0 - - + +
1760B TYR* 4.0 21.5 - - + +
1763B THR* 4.8 5.6 - - - +
1764B ILE* 4.2 18.6 - - + -
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Residues in contact with HIS1511 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1453B LYS 3.2 18.8 - - - -
1454B ALA* 4.1 4.2 - - - +
1455B TYR* 3.4 37.0 + + + +
1457B THR* 4.0 4.7 - - + +
1476B LEU* 4.1 11.9 - - + -
1507B LEU* 3.2 16.1 + - + +
1508B ALA 3.6 8.1 - - - +
1510B ALA* 1.3 80.8 - - + +
1512B VAL* 1.4 58.6 + - - +
1514B VAL* 3.5 6.0 + - - +
1515B ASN* 3.2 29.1 + - - -
1737B ALA* 3.3 20.8 - - + +
1738B ARG 5.1 0.2 - - - -
1739B ARG 2.8 29.6 + - - -
1740B PHE* 4.0 3.4 + - - -
1741B ILE* 4.4 11.0 - - + -
1763B THR* 5.1 8.8 - - - +
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Residues in contact with VAL1512 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1370B PHE* 4.2 12.8 - - + -
1433B LEU* 3.8 24.0 - - + -
1435B TYR* 5.3 0.7 - - + -
1457B THR* 3.4 28.5 - - - +
1459B THR* 3.4 27.8 - - - +
1474B ILE* 3.6 17.5 - - + -
1508B ALA 3.1 15.6 + - - +
1509B LYS* 3.1 11.0 + - - +
1511B HIS* 1.4 74.2 - - - +
1513B ILE* 1.3 59.3 + - + +
1515B ASN* 3.1 5.5 + - - +
1516B ASP* 2.9 22.7 + - - +
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Residues in contact with ILE1513 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1370B PHE* 3.7 33.2 - - + +
1374B VAL* 6.2 2.5 - - + -
1433B LEU* 5.5 3.1 - - + -
1509B LYS* 2.8 25.4 + - + +
1510B ALA* 3.0 4.0 + - - +
1512B VAL* 1.3 77.9 - - + +
1514B VAL* 1.3 56.5 + - - +
1515B ASN 3.3 0.2 - - - -
1516B ASP* 3.7 5.8 - - + -
1517B SER* 2.9 28.1 + - - -
1732B ASN 3.5 19.5 - - - +
1733B ARG* 3.3 41.5 - - - +
1734B PRO* 3.3 17.1 - - + +
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Residues in contact with VAL1514 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1439B PHE* 5.0 0.3 - - - -
1454B ALA* 5.4 0.4 - - + -
1510B ALA 2.8 26.5 + - - +
1511B HIS* 3.7 8.5 - - - +
1513B ILE* 1.3 69.0 - - - +
1515B ASN* 1.3 66.2 + - - +
1518B GLY* 3.2 18.5 + - - -
1584B LEU* 3.8 22.3 - - + +
1734B PRO* 3.2 24.2 - - + +
1735B THR 3.6 18.9 - - - +
1736B LEU 3.3 20.6 - - - +
1737B ALA* 3.7 27.8 - - + +
1764B ILE* 4.7 3.1 - - + -
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Residues in contact with ASN1515 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1435B TYR* 3.7 19.0 - - + +
1439B PHE* 3.5 32.1 - - + -
1454B ALA* 5.2 0.6 - - - +
1455B TYR 3.2 22.0 + - - +
1456B ALA* 3.7 3.1 - - - -
1457B THR* 2.7 41.4 + - - +
1511B HIS 3.2 13.8 + - - -
1512B VAL 3.1 9.8 + - - +
1514B VAL* 1.3 77.1 - - - +
1516B ASP* 1.3 59.6 + - - +
1518B GLY 3.4 0.9 + - - -
1519B TYR* 2.9 27.4 + - - +
1584B LEU* 4.5 7.5 - - - +
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Residues in contact with ASP1516 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1374B VAL* 5.8 1.9 - - - +
1379B ASN* 2.7 36.6 + - - +
1433B LEU* 3.8 17.1 - - + +
1435B TYR* 2.9 27.9 + - + +
1512B VAL 2.9 15.7 + - - +
1513B ILE* 3.9 7.4 - - + +
1515B ASN* 1.3 77.1 - - - +
1517B SER* 1.3 52.0 + - - +
1520B HIS* 2.7 31.0 + - - +
1733B ARG* 3.0 28.4 + - - +
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Residues in contact with SER1517 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1513B ILE* 2.9 19.5 + - - -
1514B VAL 4.5 0.4 - - - -
1516B ASP* 1.3 72.9 - - - +
1518B GLY* 1.3 67.5 + - - +
1520B HIS* 4.0 5.7 + - - +
1521B GLN* 3.2 24.1 + - - +
1583B PHE* 3.7 19.6 - - - -
1733B ARG* 3.5 35.1 + - - +
1734B PRO 3.8 15.0 - - - -
1735B THR* 4.6 3.2 - - - +
1777B ILE* 5.9 2.4 - - - +
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Residues in contact with GLY1518 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1439B PHE* 4.8 7.4 - - - -
1514B VAL 3.2 16.6 + - - -
1515B ASN 3.7 3.1 - - - -
1517B SER* 1.3 77.6 - - - +
1519B TYR* 1.3 57.8 + - - +
1521B GLN* 3.8 0.7 - - - +
1522B LEU* 3.0 43.6 + - - +
1583B PHE* 4.4 10.9 - - - -
1584B LEU 5.5 0.4 - - - -
1585B PRO* 4.9 9.0 - - - -
1592B MET* 6.2 0.2 - - - -
1735B THR 5.3 1.1 + - - -
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Residues in contact with TYR1519 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1381B ASN* 5.8 0.2 - - - -
1382B VAL* 4.0 16.7 - - + +
1435B TYR* 3.4 43.1 - + + +
1438B ALA* 4.3 22.4 - - + -
1439B PHE* 4.2 8.0 - + + -
1515B ASN 2.9 11.1 + - - +
1518B GLY* 1.3 70.6 - - - +
1520B HIS* 1.3 68.2 + - - +
1522B LEU* 4.7 0.9 - - - -
1523B VAL* 2.9 51.8 + - + +
1524B SER* 3.0 21.6 + - - -
1528B ASN* 5.5 1.0 + - - -
1592B MET* 5.1 3.6 - - + -
1596B VAL* 4.3 12.6 - - + +
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Residues in contact with HIS1520 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1378B VAL* 3.6 33.5 - - + +
1379B ASN* 3.6 24.0 - - + +
1516B ASP* 2.7 25.5 + - - +
1517B SER* 4.0 8.4 + - - +
1519B TYR* 1.3 76.9 - - - +
1521B GLN* 1.3 67.1 + - - +
1524B SER* 3.1 9.0 + - - -
1525B HIS* 2.7 44.3 + - + +
1719B VAL* 2.6 40.5 + - + +
1723B GLN* 3.4 25.9 + - - -
1733B ARG* 4.5 3.0 + - - +
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Residues in contact with GLN1521 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1517B SER 3.2 16.6 + - - +
1518B GLY 3.8 1.8 - - - +
1520B HIS* 1.3 79.6 + - - +
1522B LEU* 1.3 62.5 + - + +
1525B HIS* 3.3 25.1 + - - +
1526B TRP* 2.8 37.2 + - + +
1579B ILE* 4.3 26.2 - - + +
1583B PHE* 3.8 37.9 - - + -
1723B GLN* 2.9 30.7 + - - +
1777B ILE* 4.7 3.0 - - - +
1780B LEU* 4.6 6.3 - - - +
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Residues in contact with LEU1522 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1518B GLY* 3.0 19.8 + - - +
1519B TYR* 4.7 0.4 - - - -
1521B GLN* 1.3 82.5 - - + +
1523B VAL* 1.3 67.6 + - + +
1526B TRP* 3.6 8.3 - - + +
1527B LEU 3.3 16.5 + - - -
1573B ILE* 6.1 0.2 - - + -
1579B ILE* 4.0 25.8 - - + -
1583B PHE* 5.2 4.5 - - + -
1585B PRO* 3.7 32.5 - - + -
1589B SER* 3.2 38.8 - - - +
1590B ILE* 4.0 11.9 - - + -
1592B MET* 5.0 7.4 - - + -
1593B SER* 3.8 17.6 - - - +
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Residues in contact with VAL1523 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1519B TYR* 2.9 48.2 + - + +
1522B LEU* 1.3 81.0 - - + +
1524B SER* 1.3 67.2 + - - +
1525B HIS 3.2 2.2 + - - -
1527B LEU* 3.2 7.5 + - + -
1528B ASN* 3.1 42.9 + - - +
1592B MET* 5.1 4.9 - - + +
1593B SER* 4.5 9.6 - - - -
1596B VAL* 3.4 42.8 - - + -
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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