Contacts of the helix formed by residues 1482 - 1505 (chain B) in PDB entry 1XTB
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 THR1482 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556A ILE* 4.1 27.2 - - + +
1047B HIS 4.6 2.8 + - - -
1170B LEU* 4.0 3.6 - - - -
1173B TYR* 3.3 17.7 - - + +
1480B LYS* 3.1 18.6 + - + +
1481B LEU* 1.3 74.4 - - - +
1483B PRO* 1.3 76.7 - - - +
1484B PHE* 3.7 7.2 + - - +
1485B ILE* 3.3 25.6 + - - +
1486B LEU* 2.9 24.4 + - - +
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Residues in contact with PRO1483 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1170B LEU* 3.9 25.1 - - + -
1173B TYR* 3.6 31.0 - - + -
1291B ASN* 3.5 47.6 - - + +
1294B GLN* 3.7 7.6 - - + -
1295B LEU* 3.3 16.6 - - - +
1482B THR* 1.3 88.8 - - - +
1484B PHE* 1.3 62.0 + - - +
1486B LEU* 3.5 0.3 + - - +
1487B GLY 3.0 17.7 + - - -
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Residues in contact with PHE1484 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1045B THR* 3.4 32.1 - - + -
1047B HIS* 3.7 38.6 - + + -
1294B GLN* 3.2 37.5 + - - +
1297B SER* 3.5 16.8 - - - -
1298B GLY* 3.1 37.4 - - - -
1301B TRP* 3.6 28.9 - + + -
1482B THR* 3.2 6.7 - - - +
1483B PRO* 1.3 80.9 - - - +
1485B ILE* 1.3 71.1 + - + +
1487B GLY 3.1 2.3 + - - -
1488B ALA* 3.0 21.2 + - + +
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Residues in contact with ILE1485 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556A ILE* 5.5 0.7 - - + -
1045B THR* 4.2 13.5 - - + +
1047B HIS 3.9 20.6 - - - +
1048B GLY* 4.3 9.6 - - - +
1049B HIS 5.1 1.3 - - - +
1050B ILE* 4.2 24.0 - - + -
1478B PHE* 3.9 25.8 - - + -
1479B THR 5.8 0.2 - - - +
1480B LYS 3.3 29.6 - - - +
1481B LEU* 4.7 1.6 - - + -
1482B THR* 3.3 15.0 + - + +
1484B PHE* 1.3 78.4 - - + +
1486B LEU* 1.3 67.1 + - - +
1488B ALA* 3.1 4.5 + - + +
1489B LEU* 2.9 33.5 + - + +
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Residues in contact with LEU1486 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1165B MET* 4.7 2.9 - - - -
1166B VAL* 3.9 20.9 - - + -
1169B ALA* 3.8 15.0 - - + -
1170B LEU* 3.7 32.3 - - + -
1295B LEU* 4.3 3.1 - - + -
1344B LEU* 4.0 25.1 - - + -
1347B PHE* 4.6 8.3 - - + -
1481B LEU* 4.2 15.9 - - + +
1482B THR 2.9 18.5 + - - +
1483B PRO 3.8 3.8 - - - +
1485B ILE* 1.3 75.3 - - - +
1487B GLY* 1.3 57.2 + - - +
1489B LEU* 3.2 6.7 + - + +
1490B ILE* 2.9 53.0 + - + +
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Residues in contact with GLY1487 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1276B TRP* 3.5 15.9 - - - -
1295B LEU* 3.5 25.3 - - - +
1299B ALA* 3.5 9.3 - - - -
1483B PRO 3.0 10.7 + - - -
1484B PHE 3.1 4.5 + - - -
1486B LEU* 1.3 77.6 - - - +
1488B ALA* 1.3 61.1 + - - +
1490B ILE 3.5 0.2 + - - -
1491B ALA* 3.1 25.3 + - - +
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Residues in contact with ALA1488 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1045B THR* 5.4 0.4 - - + -
1050B ILE* 4.2 18.6 - - + -
1298B GLY* 3.3 21.8 - - - +
1301B TRP* 4.9 6.5 - - + -
1302B MET* 3.5 20.2 - - + +
1484B PHE* 3.0 17.0 + - + +
1485B ILE* 3.1 10.5 + - + +
1487B GLY* 1.3 76.3 - - - +
1489B LEU* 1.3 57.2 + - - +
1491B ALA 3.4 0.2 + - - -
1492B MET* 2.9 29.5 + - - +
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Residues in contact with LEU1489 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1050B ILE* 4.3 17.7 - - + -
1344B LEU* 5.5 3.4 - - + -
1347B PHE* 4.9 13.5 - - + -
1406B LEU* 4.8 9.0 - - + -
1476B ILE* 4.3 16.8 - - + -
1478B PHE* 3.7 36.1 - - + -
1481B LEU* 4.1 10.5 - - + -
1485B ILE* 2.9 29.2 + - + +
1486B LEU* 3.6 7.4 - - + +
1488B ALA* 1.3 75.5 - - - +
1490B ILE* 1.3 65.6 + - - +
1492B MET* 3.3 26.1 + - + +
1493B TYR* 3.3 28.4 + - + -
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Residues in contact with ILE1490 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1165B MET* 3.7 27.1 - - + -
1166B VAL* 4.0 13.7 - - + -
1275B LEU* 4.2 7.2 - - + -
1276B TRP* 3.8 26.5 - - + -
1295B LEU* 4.7 2.7 - - + -
1347B PHE* 4.4 4.5 - - + -
1350B TYR* 3.9 17.5 - - + +
1351B PHE* 3.5 23.2 - - + -
1486B LEU* 2.9 42.1 + - + +
1487B GLY 4.0 0.2 - - - +
1489B LEU* 1.3 75.1 - - - +
1491B ALA* 1.3 64.3 + - - +
1493B TYR 3.2 2.8 + - - -
1494B GLU* 3.0 32.0 + - + +
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Residues in contact with ALA1491 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1103B ARG* 3.8 13.5 - - - +
1276B TRP* 4.4 0.8 - - - -
1299B ALA* 3.7 25.6 - - + +
1302B MET* 3.8 12.1 - - + -
1303B ASP* 4.3 1.6 - - - +
1487B GLY 3.1 18.6 + - - +
1488B ALA 3.7 3.8 - - - +
1490B ILE* 1.3 77.0 - - - +
1492B MET* 1.3 63.2 + - - +
1494B GLU* 3.1 14.2 + - - +
1495B HIS* 3.0 27.9 + - - -
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Residues in contact with MET1492 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1043B LEU* 5.9 0.9 - - - -
1050B ILE* 5.3 5.8 - - - -
1052B LEU* 5.7 4.9 - - - -
1302B MET* 3.6 30.5 - - + -
1315B ALA* 4.5 10.1 - - - -
1316B PRO* 3.4 19.1 - - + +
1319B LEU* 3.7 30.5 - - + -
1476B ILE* 3.8 27.8 - - + -
1488B ALA 2.9 17.4 + - - +
1489B LEU* 3.4 27.6 - - + +
1491B ALA* 1.3 78.6 - - - +
1493B TYR* 1.3 76.1 + - + +
1495B HIS 3.4 0.7 + - - -
1496B LYS* 3.1 21.7 + - - +
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Residues in contact with TYR1493 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1319B LEU* 4.2 13.2 - - + -
1337B VAL* 5.3 8.0 - - + +
1347B PHE* 3.9 33.0 - + - -
1351B PHE* 3.2 34.3 - + + -
1404B ASP* 2.7 35.4 + - + +
1406B LEU* 4.0 11.5 - - + +
1476B ILE* 3.2 15.9 - - - +
1489B LEU* 3.3 17.4 + - + -
1490B ILE 3.2 2.0 + - - -
1492B MET* 1.3 92.3 - - + +
1494B GLU* 1.3 65.2 + - - +
1496B LYS* 3.0 28.2 + - + +
1497B ILE* 2.9 28.1 + - + +
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Residues in contact with GLU1494 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1099B HIS* 3.8 5.5 - - - +
1103B ARG* 2.8 35.9 + - - -
1272B ARG 4.8 0.4 - - - +
1273B TYR* 3.4 46.7 + - + +
1276B TRP* 3.1 20.7 + - - -
1350B TYR* 4.4 8.1 + - + +
1351B PHE* 4.1 5.6 - - + -
1490B ILE* 3.0 26.8 + - + +
1491B ALA* 3.1 9.8 + - - +
1493B TYR* 1.3 77.1 - - - +
1495B HIS* 1.3 62.9 + - - +
1497B ILE* 3.3 10.9 + - + +
1498B PHE* 3.0 23.9 + - - +
1509B PHE* 6.2 0.2 - - - -
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Residues in contact with HIS1495 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1083B MET* 4.0 21.0 - - + +
1084B PHE* 4.3 1.8 - + - -
1099B HIS* 4.8 6.6 + + - -
1100B VAL* 4.1 7.0 - - + -
1103B ARG* 3.7 11.7 + - - -
1302B MET* 4.5 6.5 - - + -
1303B ASP* 2.6 34.8 + - - -
1306B PHE* 3.4 43.9 - + + -
1316B PRO* 3.6 19.5 - - + -
1491B ALA 3.0 20.1 + - - +
1494B GLU* 1.3 77.7 + - + +
1496B LYS* 1.3 65.4 + - - +
1498B PHE* 3.4 5.3 - - - +
1499B VAL* 2.9 30.0 + - - +
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Residues in contact with LYS1496 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1316B PRO* 3.6 15.9 - - - +
1319B LEU* 3.7 30.3 + - + +
1320B ALA* 3.5 18.5 - - - +
1323B GLY* 5.1 2.4 - - - -
1335B GLN* 3.7 33.1 + - - +
1355B ASP* 4.9 8.3 + - - +
1404B ASP* 4.7 8.3 + - - -
1492B MET 3.1 12.9 + - - +
1493B TYR* 3.0 33.5 + - + +
1495B HIS* 1.3 75.9 - - - +
1497B ILE* 1.3 67.6 + - + +
1499B VAL 3.3 0.2 + - - -
1500B GLN* 3.1 47.4 + - - +
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Residues in contact with ILE1497 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1273B TYR* 3.7 11.7 - - + +
1351B PHE* 4.0 18.2 - - + -
1354B GLY* 3.5 9.6 - - - +
1355B ASP* 3.5 43.1 - - + +
1358B SER* 3.6 26.2 - - - -
1359B ASN* 3.0 35.8 - - - +
1493B TYR* 2.9 19.6 + - + +
1494B GLU* 3.3 11.4 - - - +
1496B LYS* 1.3 81.4 - - + +
1498B PHE* 1.3 61.5 + - - +
1500B GLN* 3.5 4.7 + - - +
1501B GLY* 3.1 10.9 + - - -
1508B SER* 3.9 2.4 + - - -
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Residues in contact with PHE1498 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1076B VAL* 4.5 3.1 - - + -
1079B ALA* 3.5 27.1 - - + -
1080B ARG* 3.6 26.2 - - + -
1083B MET* 4.0 21.8 - - + -
1089B ILE* 4.1 15.9 - - + -
1273B TYR* 5.4 0.4 + - - -
1306B PHE* 3.8 22.9 - + - -
1494B GLU 3.0 13.6 + - - +
1495B HIS* 3.2 12.8 + - - +
1497B ILE* 1.3 77.1 - - - +
1499B VAL* 1.3 66.5 + - + +
1501B GLY* 3.2 3.6 + - - -
1502B VAL* 3.1 45.4 + - + +
1508B SER* 4.6 5.2 + - - -
1509B PHE* 3.6 29.2 - + + -
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Residues in contact with VAL1499 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1076B VAL* 4.0 25.1 - - + -
1306B PHE* 3.8 30.1 - - + -
1316B PRO 4.3 0.7 - - - +
1317B VAL* 4.2 20.6 - - + -
1320B ALA* 3.4 26.0 - - + -
1321B MET* 4.3 14.4 - - - -
1495B HIS 2.9 21.4 + - - +
1498B PHE* 1.3 78.6 - - + +
1500B GLN* 1.3 62.1 + - - +
1502B VAL* 3.2 8.5 + - - +
1503B VAL* 3.1 20.8 + - - +
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Residues in contact with GLN1500 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1320B ALA* 2.9 33.6 + - + +
1323B GLY* 3.6 19.2 - - - -
1324B ILE* 3.8 15.4 - - + +
1327B ILE* 4.5 5.9 - - - +
1355B ASP* 4.6 11.3 - - - +
1359B ASN* 4.0 4.3 - - - +
1376B PRO* 4.8 4.7 - - - +
1496B LYS* 3.1 38.6 + - - +
1497B ILE* 3.9 6.3 - - - +
1499B VAL* 1.3 75.1 - - - +
1501B GLY* 1.3 63.4 + - - +
1503B VAL* 3.2 4.6 + - - +
1504B TRP* 2.9 56.5 + - + -
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Residues in contact with GLY1501 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1359B ASN* 3.8 4.4 + - - -
1497B ILE 3.1 10.7 + - - -
1498B PHE 3.2 1.3 + - - -
1500B GLN* 1.3 78.4 - - - +
1502B VAL* 1.3 50.5 + - - +
1504B TRP* 3.2 2.2 + - - -
1505B ASP 2.8 28.9 + - - -
1506B ILE* 3.0 29.0 + - - +
1508B SER* 3.3 24.7 - - - -
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Residues in contact with VAL1502 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1074B ARG* 3.0 36.1 + - - +
1076B VAL* 4.0 18.4 - - + -
1079B ALA* 3.8 32.5 - - + -
1498B PHE* 3.1 35.8 + - + +
1499B VAL* 3.4 8.5 - - - +
1501B GLY* 1.3 75.5 - - - +
1503B VAL* 1.3 62.1 + - - +
1505B ASP* 2.9 12.7 + - - +
1506B ILE 5.2 1.3 - - - -
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Residues in contact with VAL1503 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1003B LEU* 3.7 33.6 - - + +
1070B LEU* 4.5 10.5 - - + -
1071B ALA* 4.7 1.6 - - - -
1074B ARG* 2.9 37.7 + - + +
1076B VAL* 4.3 13.9 - - + -
1321B MET* 3.9 27.4 - - + -
1324B ILE* 4.3 20.0 - - + -
1499B VAL 3.1 14.0 + - - +
1500B GLN* 3.5 10.5 - - - +
1502B VAL* 1.3 75.3 - - - +
1504B TRP* 1.3 61.0 + - - +
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Residues in contact with TRP1504 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1003B LEU* 3.5 24.5 + - + +
1324B ILE* 3.4 20.8 - - + +
1327B ILE* 3.8 21.3 - - + -
1328B ASN* 2.7 22.7 + - - -
1359B ASN* 3.7 15.0 - - + -
1364B THR* 4.0 8.5 - - - +
1372B HIS* 3.6 27.3 + + + -
1373B GLN 3.3 8.3 + - - -
1374B THR* 3.5 25.6 - - + -
1375B GLY* 3.5 19.1 - - - -
1500B GLN* 2.9 45.6 + - + +
1501B GLY 3.8 3.1 - - - +
1503B VAL* 1.3 74.4 - - - +
1505B ASP* 1.3 70.1 + - - +
1506B ILE* 3.4 33.5 + - + +
----------------------------------------------------------
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Residues in contact with ASP1505 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1002B ALA* 3.8 21.1 - - + +
1074B ARG* 3.0 24.7 + - - +
1364B THR* 3.2 19.6 + - + -
1365B LYS* 2.9 45.3 + - - +
1366B SER* 4.3 7.8 + - - -
1501B GLY 2.8 7.4 + - - -
1502B VAL* 2.9 11.8 + - - +
1503B VAL 3.1 0.4 - - - +
1504B TRP* 1.3 80.0 - - - +
1506B ILE* 1.3 57.6 + - - +
----------------------------------------------------------
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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