Contacts of the helix formed by residues 1338 - 1364 (chain B) in PDB entry 1G50
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 SER1338 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1335B ARG* 5.5 1.2 + - - -
1336B PRO 3.9 0.9 + - - -
1337B PHE* 1.3 76.2 - - - +
1339B GLU* 1.3 64.8 + - - +
1340B ALA* 3.7 5.3 + - - +
1341B SER* 2.7 38.7 + - - -
1342B MET* 3.0 20.8 + - - +
1417B CYS* 4.2 5.3 - - - +
1418B VAL* 4.4 0.7 - - - +
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Residues in contact with GLU1339 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1338B SER* 1.3 75.2 - - - +
1340B ALA* 1.3 64.6 + - - +
1343B MET* 3.2 19.4 + - - +
1417B CYS 3.6 16.9 + - - +
1418B VAL* 3.4 22.4 - - + +
1419B GLU* 3.3 34.2 + - - +
1528B MET* 4.4 5.2 - - - +
1531B LYS* 4.3 14.6 + - - +
1533B VAL* 3.9 27.3 - - + +
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Residues in contact with ALA1340 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1338B SER* 3.7 4.6 + - - +
1339B GLU* 1.3 76.7 - - - +
1341B SER* 1.3 67.7 + - - +
1343B MET* 3.3 0.7 + - - +
1344B GLY* 2.9 23.4 + - - -
1533B VAL* 3.3 29.0 - - + +
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Residues in contact with SER1341 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1335B ARG* 4.1 27.5 + - - +
1336B PRO 3.8 12.8 + - - -
1337B PHE* 4.3 7.0 - - - -
1338B SER* 2.7 38.8 + - - -
1340B ALA* 1.3 75.3 - - - +
1342B MET* 1.3 58.2 + - - +
1344B GLY* 3.8 1.2 - - - -
1345B LEU* 3.0 30.7 + - - +
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Residues in contact with MET1342 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1337B PHE* 3.9 30.7 - - + -
1338B SER 3.0 15.9 + - - +
1341B SER* 1.3 73.8 - - - +
1343B MET* 1.3 67.1 + - + +
1345B LEU* 3.7 6.8 - - + +
1346B LEU* 3.0 34.6 + - + +
1410B LEU* 3.9 22.9 - - + -
1414B GLN 4.2 15.9 - - - +
1415B GLY* 3.8 13.2 - - - -
1417B CYS* 4.6 3.4 - - + -
1418B VAL* 3.5 28.7 - - + +
1421B MET* 3.6 28.5 - - + -
1425B PHE* 3.9 6.5 - - + -
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Residues in contact with MET1343 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1339B GLU 3.2 20.7 + - - +
1340B ALA 3.8 2.7 - - - +
1342B MET* 1.3 78.5 - - + +
1344B GLY* 1.3 61.3 + - - +
1346B LEU* 3.7 15.0 - - + -
1347B THR* 2.8 46.3 + - + +
1418B VAL* 4.0 15.0 - - + -
1421B MET* 3.8 29.4 - - - -
1524B HIS* 4.2 1.3 - - - -
1525B LEU* 4.7 0.4 - - - -
1528B MET* 3.6 34.5 - - + -
1533B VAL* 4.0 22.2 - - + +
1534B VAL* 5.1 0.7 - - - +
1535B PRO* 4.9 0.2 - - - -
1600B EST 3.8 21.3 - - + +
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Residues in contact with GLY1344 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1330B GLU* 4.8 1.2 - - - +
1340B ALA 2.9 17.0 + - - -
1341B SER 3.8 1.6 - - - -
1343B MET* 1.3 77.8 - - - +
1345B LEU* 1.3 56.4 + - - +
1347B THR* 3.4 7.8 + - - -
1348B ASN* 3.0 29.3 + - - +
1533B VAL 4.4 1.4 + - - -
1535B PRO* 3.7 20.4 - - - -
1537B TYR* 3.7 4.9 + - - -
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Residues in contact with LEU1345 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1329B SER* 2.8 30.1 - - - +
1330B GLU* 3.1 33.7 - - - +
1331B TYR* 3.4 31.0 - - + -
1335B ARG* 6.2 1.8 - - - +
1337B PHE* 5.3 4.7 - - + -
1341B SER* 3.0 20.2 + - - +
1342B MET* 3.7 9.0 - - + +
1343B MET 3.1 0.2 - - - -
1344B GLY* 1.3 78.2 - - - +
1346B LEU* 1.3 58.9 + - + +
1348B ASN* 3.4 5.0 - - - +
1349B LEU* 3.2 21.3 + - - +
1408B LEU* 3.4 15.5 - - + -
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Residues in contact with LEU1346 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1342B MET* 3.0 37.6 + - + +
1343B MET* 3.9 18.4 - - + +
1345B LEU* 1.3 73.8 - - + +
1347B THR* 1.3 67.2 + - - +
1348B ASN 2.9 1.3 - - - -
1349B LEU* 2.9 8.3 + - + +
1350B ALA* 2.8 22.2 + - - +
1404B PHE* 3.1 50.7 - - + -
1408B LEU* 4.1 17.3 - - + -
1410B LEU* 4.2 10.1 - - + -
1421B MET* 4.9 2.7 - - - -
1425B PHE* 4.8 3.8 - - + -
1600B EST 3.9 24.8 - - + -
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Residues in contact with THR1347 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1343B MET* 2.8 34.4 + - - +
1344B GLY 3.4 5.9 + - - -
1346B LEU* 1.3 73.1 - - - +
1348B ASN* 1.3 58.2 + - - +
1350B ALA* 3.5 4.7 - - - +
1351B ASP* 2.9 26.5 + - - +
1525B LEU* 3.7 30.1 - - + -
1534B VAL* 3.9 13.5 - - + -
1535B PRO* 3.4 16.6 - - - +
1537B TYR* 3.5 12.2 - - - -
1540B LEU* 3.5 19.5 - - + +
1600B EST 4.6 6.3 - - + -
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Residues in contact with ASN1348 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1330B GLU* 3.1 34.5 + - - +
1344B GLY 3.0 17.9 + - - +
1345B LEU 3.4 7.0 - - - +
1346B LEU 2.9 0.4 - - - -
1347B THR* 1.3 82.3 + - - +
1349B LEU* 1.3 62.3 + - - +
1350B ALA 3.3 0.7 + - - -
1351B ASP* 4.0 1.6 - - - +
1352B ARG* 2.7 64.8 + - - +
1537B TYR* 3.1 29.6 + - - +
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Residues in contact with LEU1349 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1327B LEU* 4.0 22.0 - - + +
1329B SER* 4.0 20.4 - - - +
1345B LEU 3.2 9.7 + - - +
1346B LEU* 2.9 10.4 + - - +
1348B ASN* 1.3 84.4 + - - +
1350B ALA* 1.3 57.8 + - - +
1352B ARG* 3.6 25.9 - - - +
1353B GLU* 3.0 42.4 + - - +
1404B PHE* 3.8 47.6 - - + +
1405B ALA* 4.3 0.9 - - + -
1408B LEU* 4.5 2.2 - - + -
1600B EST 4.6 6.7 - - + +
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Residues in contact with ALA1350 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1346B LEU 2.8 11.5 + - - +
1347B THR* 3.5 11.2 - - - +
1349B LEU* 1.3 73.5 - - - +
1351B ASP* 1.3 57.2 + - - +
1353B GLU* 2.8 6.9 + - - +
1354B LEU* 2.5 39.3 + - - +
1383B TRP* 5.2 0.2 - - + -
1387B LEU* 4.0 17.7 - - + -
1540B LEU* 3.9 18.2 - - + -
1600B EST 4.2 20.8 - - + -
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Residues in contact with ASP1351 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1347B THR 2.9 17.0 + - - +
1348B ASN 4.0 3.6 - - - +
1350B ALA* 1.3 75.9 - - - +
1352B ARG* 1.3 69.4 + - + +
1354B LEU* 3.2 17.3 + - - +
1355B VAL* 3.5 7.8 - - - +
1537B TYR* 2.9 38.0 - - + +
1538B ASP* 4.0 0.9 + - - +
1539B LEU* 3.3 39.6 + - - +
1540B LEU* 3.3 12.2 + - + +
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Residues in contact with ARG1352 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1327B LEU* 3.3 31.6 - - + +
1328B TYR 3.4 13.6 + - - -
1329B SER* 3.4 11.5 - - - +
1330B GLU* 3.2 25.6 - - - +
1348B ASN* 2.7 46.2 + - - +
1349B LEU* 3.6 12.4 - - - +
1350B ALA 2.9 3.6 + - - -
1351B ASP* 1.3 81.9 - - + +
1353B GLU* 1.3 63.4 + - - +
1355B VAL* 2.9 26.6 + - - +
1356B HIS* 3.8 5.4 + - - -
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Residues in contact with GLU1353 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1324B PRO* 6.1 5.2 - - + -
1325B PRO 5.4 0.4 - - - +
1327B LEU* 3.7 29.9 - - + +
1349B LEU* 3.0 21.1 + - + +
1350B ALA 2.8 5.2 + - - +
1352B ARG* 1.3 77.5 - - - +
1354B LEU* 1.3 56.5 + - - +
1355B VAL 3.0 6.2 + - - -
1356B HIS* 3.3 6.4 + - + +
1357B MET* 3.1 21.6 + - + +
1387B LEU* 3.2 18.9 - - + +
1394B ARG* 3.5 23.6 + - - -
1600B EST 2.8 34.7 + - - -
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Residues in contact with LEU1354 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1350B ALA 2.5 19.6 + - - +
1351B ASP 3.3 9.6 - - - +
1352B ARG 3.0 0.4 - - - -
1353B GLU* 1.3 70.2 - - - +
1355B VAL* 1.3 56.5 + - - +
1357B MET* 3.8 23.0 - - - +
1358B ILE* 3.7 14.4 - - - +
1383B TRP* 3.4 50.7 - - + -
1387B LEU* 3.9 11.6 - - + +
1539B LEU* 3.2 26.9 - - + +
1540B LEU* 3.8 21.1 - - + -
1543B MET* 3.6 18.2 - - + -
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Residues in contact with VAL1355 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1351B ASP* 3.5 20.2 - - - +
1352B ARG* 2.9 11.8 + - - +
1354B LEU* 1.3 79.3 - - - +
1356B HIS* 1.3 76.8 + - + +
1357B MET 3.0 1.1 - - - -
1358B ILE* 3.3 25.7 + - + +
1359B ASN* 3.6 12.9 + - - +
1539B LEU* 4.0 16.8 - - + -
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Residues in contact with HIS1356 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1324B PRO* 3.9 21.7 - - + +
1325B PRO* 3.0 38.0 + - + +
1327B LEU* 3.7 31.9 - - + +
1352B ARG 3.8 6.4 + - - -
1353B GLU* 3.3 7.9 + - + +
1355B VAL* 1.3 87.7 - - + +
1357B MET* 1.3 60.1 + - - +
1359B ASN* 3.4 11.7 + - - +
1360B TRP* 3.0 27.0 + - - +
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Residues in contact with MET1357 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1324B PRO* 5.3 4.0 - - - -
1353B GLU* 3.1 16.7 + - + +
1354B LEU* 3.8 23.8 - - + +
1355B VAL 3.0 0.4 - - - -
1356B HIS* 1.3 76.5 - - - +
1358B ILE* 1.3 67.4 + - + +
1360B TRP* 3.4 19.4 - - + +
1361B ALA* 2.9 21.8 + - - +
1379B LEU* 4.6 11.2 - - + -
1383B TRP* 3.1 37.0 - - - +
1386B ILE* 3.3 33.2 - - + -
1387B LEU* 3.5 20.6 - - + +
1449B LYS* 6.1 0.9 - - - -
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Residues in contact with ILE1358 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1354B LEU 3.7 19.7 - - - +
1355B VAL* 3.3 14.8 + - + +
1356B HIS 3.2 0.4 - - - -
1357B MET* 1.3 80.2 - - + +
1359B ASN* 1.3 71.4 + - - +
1361B ALA* 3.2 19.2 + - - +
1362B LYS* 3.2 30.7 + - + +
1379B LEU* 4.7 15.5 - - + -
1539B LEU* 4.3 17.7 - - + -
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Residues in contact with ASN1359 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1355B VAL* 3.6 16.2 + - - +
1356B HIS* 3.4 12.7 + - - +
1358B ILE* 1.3 82.3 - - - +
1360B TRP* 1.3 68.0 + - - +
1362B LYS* 3.2 17.0 + - - +
1363B ARG* 3.3 31.3 + - - +
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Residues in contact with TRP1360 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1319B LEU* 4.5 5.9 + - - +
1322B ALA* 3.6 42.9 - - + +
1323B GLU* 4.0 9.7 + - - -
1324B PRO* 4.0 18.4 - - + -
1356B HIS 3.0 15.4 + - - +
1357B MET* 3.2 23.3 + - + +
1359B ASN* 1.3 73.8 - - - +
1361B ALA* 1.3 71.9 + - + +
1363B ARG* 2.7 36.2 + - - +
1364B VAL* 3.3 21.0 + - + +
1386B ILE* 3.9 21.3 - - + -
1446B VAL* 5.2 0.8 - - - +
1449B LYS* 3.0 48.2 - - + -
1450B SER* 3.5 12.3 + - - -
1453B LEU* 3.5 30.3 - - + -
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Residues in contact with ALA1361 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1357B MET 2.9 8.2 + - - +
1358B ILE 3.2 10.8 - - - +
1360B TRP* 1.3 87.3 - - + +
1362B LYS* 1.3 63.9 + - - +
1363B ARG 2.9 1.6 + - - -
1364B VAL* 3.0 13.3 + - - +
1367B PHE* 3.0 32.1 - - + -
1379B LEU* 3.4 34.3 - - + -
1453B LEU* 4.1 7.6 - - + -
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Residues in contact with LYS1362 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1358B ILE* 3.2 30.9 + - + +
1359B ASN* 3.5 13.5 - - - +
1360B TRP 3.1 0.4 + - - -
1361B ALA* 1.3 78.4 - - + +
1363B ARG* 1.3 61.8 + - + +
1364B VAL 4.1 2.8 - - - +
1367B PHE* 3.7 12.4 - - + -
1368B VAL* 3.1 34.6 - - + +
1372B LEU* 5.8 5.3 - - - +
1375B GLN* 3.9 21.8 + - - +
1376B VAL* 5.5 6.9 - - - +
1379B LEU* 4.5 11.9 - - - +
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Residues in contact with ARG1363 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1318B ALA* 5.5 2.4 - - - +
1321B ASP* 5.6 3.6 - - - -
1322B ALA* 3.8 35.0 + - + +
1359B ASN* 3.3 32.4 + - - +
1360B TRP* 2.7 18.2 + - - +
1362B LYS* 1.3 74.0 - - + +
1364B VAL* 1.3 65.8 + - - +
1365B PRO* 3.2 8.0 - - - +
----------------------------------------------------------
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Residues in contact with VAL1364 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1319B LEU* 4.4 3.4 - - + -
1322B ALA* 5.2 1.3 - - + +
1360B TRP* 3.3 37.1 + - + +
1361B ALA 3.0 9.5 + - - +
1362B LYS 4.1 2.6 - - - +
1363B ARG* 1.3 77.6 - - - +
1365B PRO* 1.3 84.6 - - + +
1366B GLY 3.5 0.3 + - - -
1367B PHE* 3.0 21.9 + - + +
1368B VAL* 4.4 1.7 + - - +
1450B SER* 4.1 21.3 - - - +
1453B LEU* 3.5 30.1 - - + -
1454B LEU* 4.4 12.8 - - + -
1482B ILE* 5.9 1.3 - - + -
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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