Contacts of the helix formed by residues 1327 - 1350 (chain D) in PDB entry 1KI1
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 GLN1327 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1323D LEU 5.4 0.7 - - - +
1324D PRO* 3.8 17.7 - - - +
1325D HIS 3.4 0.6 - - - -
1326D MET* 1.3 75.1 - - - +
1328D PRO* 1.3 69.7 - - + +
1330D ILE* 2.9 46.6 + - + +
1331D ARG* 4.0 1.4 + - - +
1416D LEU* 4.4 7.4 - - - +
1419D GLN* 3.1 28.5 + - - +
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Residues in contact with PRO1328 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1284D ASN* 3.0 33.4 + - - +
1287D GLU* 3.7 32.5 - - + +
1288D LEU* 4.0 13.9 - - + -
1291D CYS* 5.0 8.5 - - + -
1325D HIS 3.4 13.7 - - - +
1326D MET* 3.0 6.3 - - - +
1327D GLN* 1.3 94.1 - - + +
1329D TYR* 1.3 62.1 + - + +
1330D ILE 3.2 0.7 + - - -
1331D ARG* 3.2 4.8 + - + +
1332D PHE* 3.1 11.3 + - - +
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Residues in contact with TYR1329 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1252D TYR* 2.7 28.1 + + - -
1288D LEU* 3.9 21.6 - - + +
1291D CYS* 4.2 11.7 - - - -
1292D ASN* 2.5 35.7 + - - -
1326D MET* 3.0 34.9 + - + +
1327D GLN 2.9 0.4 + - - -
1328D PRO* 1.3 75.6 - - + +
1330D ILE* 1.3 65.6 + - - +
1332D PHE* 3.8 2.2 - - - +
1333D CYS* 3.0 31.2 + - - +
1378D PRO* 3.4 36.6 - - + -
1381D ARG* 4.6 3.6 - - + +
1382D VAL* 3.3 31.0 - - + -
1385D TYR* 5.7 0.4 - + - -
1416D LEU* 4.9 0.4 - - + -
1420D VAL* 4.0 10.4 - - + +
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Residues in contact with ILE1330 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1327D GLN* 2.9 50.9 + - + +
1329D TYR* 1.3 77.4 - - - +
1331D ARG* 1.3 64.1 + - - +
1333D CYS* 4.2 0.5 - - - +
1334D SER* 3.0 28.0 + - - +
1416D LEU* 4.7 2.5 - - + -
1419D GLN* 4.0 33.0 - - + +
1420D VAL* 4.0 24.5 - - + +
1423D GLY* 4.2 14.6 - - - -
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Residues in contact with ARG1331 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1283D VAL* 4.0 18.8 + - + +
1284D ASN* 3.9 31.3 - - - +
1287D GLU* 5.2 3.1 - - - -
1327D GLN 4.0 0.8 + - - +
1328D PRO* 3.2 10.5 + - + +
1330D ILE* 1.3 80.4 - - - +
1332D PHE* 1.3 65.7 + - - +
1334D SER* 2.9 18.4 + - - -
1335D ARG* 3.3 42.8 + - - +
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Residues in contact with PHE1332 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1281D ILE 4.5 3.6 - - - -
1282D PHE 3.8 20.2 - - - -
1283D VAL* 4.0 13.5 - - + +
1284D ASN* 3.1 21.2 + - - +
1285D TRP* 3.5 30.7 - + - -
1288D LEU* 3.7 19.3 - - + -
1328D PRO 3.1 10.2 + - - +
1329D TYR* 4.0 3.8 - - - +
1330D ILE 3.3 0.4 - - - -
1331D ARG* 1.3 79.5 - - - +
1333D CYS* 1.3 61.3 + - - +
1335D ARG* 3.1 4.3 + - - +
1336D GLN* 3.0 55.7 + - + +
1375D ILE* 3.5 28.5 - - + -
1378D PRO* 3.8 22.7 - - + -
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Residues in contact with CYS1333 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C LEU* 4.7 3.8 - - + -
70C LEU* 4.3 6.0 - - + +
1329D TYR* 3.0 23.8 + - - +
1332D PHE* 1.3 84.8 - - - +
1334D SER* 1.3 61.7 + - - +
1335D ARG 3.2 0.9 + - - -
1336D GLN* 3.4 34.8 + - - +
1337D LEU* 4.7 1.4 + - - +
1378D PRO* 4.5 3.6 - - - -
1379D MET* 3.8 32.1 - - - -
1382D VAL* 4.9 0.4 - - - -
1420D VAL* 3.5 24.2 - - + -
1424D VAL* 3.6 15.3 - - + +
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Residues in contact with SER1334 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1330D ILE* 3.0 17.7 + - - +
1331D ARG* 2.9 19.8 + - - -
1333D CYS* 1.3 77.5 - - - +
1335D ARG* 1.3 68.5 + - - +
1337D LEU* 5.4 1.5 - - - +
1338D ASN* 4.8 3.3 + - - -
1423D GLY* 3.5 30.1 - - - -
1424D VAL* 3.8 13.4 - - - +
1427D LYS* 3.3 26.9 - - - +
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Residues in contact with ARG1335 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1280D MET 4.2 6.1 - - - +
1283D VAL* 3.8 28.3 - - + -
1331D ARG* 3.6 45.2 + - - +
1332D PHE 3.1 3.8 + - - +
1333D CYS 3.1 0.4 - - - -
1334D SER* 1.3 88.5 + - - +
1336D GLN* 1.3 63.0 + - - +
1337D LEU 3.4 3.0 + - - -
1338D ASN* 3.5 19.7 + - - +
1339D GLY 3.5 6.6 + - - -
1427D LYS* 3.4 40.5 - - - +
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Residues in contact with GLN1336 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70C LEU* 4.1 24.3 + - + +
1280D MET 5.3 0.2 - - - -
1281D ILE 5.4 2.4 - - - +
1283D VAL* 4.9 5.6 - - - -
1332D PHE* 3.0 45.2 + - + +
1333D CYS* 3.4 29.8 + - - +
1335D ARG* 1.3 75.4 - - - +
1337D LEU* 1.3 72.0 + - - +
1339D GLY* 2.9 13.1 + - - +
1340D ALA* 2.9 14.0 + - - +
1375D ILE* 3.8 22.2 + - + +
1376D LEU* 3.7 28.9 - - - +
1379D MET* 4.2 7.6 + - - +
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Residues in contact with LEU1337 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69C PRO* 5.1 3.1 - - + +
70C LEU* 3.9 35.2 - - + +
73C PRO* 4.2 24.9 - - + -
1333D CYS 4.7 1.4 + - - +
1334D SER 5.4 1.5 - - - +
1335D ARG 3.4 1.6 - - - -
1336D GLN* 1.3 82.5 - - - +
1338D ASN* 1.3 63.3 + - - +
1340D ALA* 2.9 25.2 + - + +
1341D ALA* 2.9 16.0 + - + +
1424D VAL* 6.5 0.4 - - + -
1428D GLU* 4.9 12.6 - - + +
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Residues in contact with ASN1338 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1280D MET* 4.0 19.6 - - + +
1334D SER 4.8 3.6 + - - -
1335D ARG* 3.5 16.4 + - - +
1336D GLN 3.2 0.6 - - - -
1337D LEU* 1.3 81.6 - - - +
1339D GLY* 1.3 60.0 + - - +
1341D ALA* 3.8 7.8 + - - +
1342D LEU* 3.3 21.1 + - - +
1427D LYS* 4.3 10.5 - - - +
1431D ASP* 3.0 27.3 + - - +
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Residues in contact with GLY1339 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1280D MET 3.1 28.5 + - - -
1281D ILE* 4.1 7.5 - - - +
1335D ARG 3.5 2.8 + - - -
1336D GLN* 2.9 10.3 + - - -
1338D ASN* 1.3 79.0 - - - +
1340D ALA* 1.3 63.7 + - - +
1342D LEU* 3.4 5.3 + - - +
1343D ILE* 3.1 31.2 + - - +
1375D ILE* 6.3 0.4 - - - -
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Residues in contact with ALA1340 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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73C PRO* 5.6 9.4 - - + -
1336D GLN 2.9 10.8 + - - +
1337D LEU* 2.9 19.5 + - + +
1339D GLY* 1.3 77.2 - - - +
1341D ALA* 1.3 62.0 + - - +
1343D ILE* 3.2 14.2 + - - +
1344D GLN* 2.9 23.3 + - - +
1372D SER* 5.9 7.4 - - - -
1375D ILE* 5.6 7.8 - - + +
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Residues in contact with ALA1341 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1337D LEU* 2.9 15.8 + - + +
1338D ASN* 4.0 8.7 - - - +
1340D ALA* 1.3 76.2 - - - +
1342D LEU* 1.3 52.2 + - - +
1344D GLN* 3.3 8.4 + - - +
1345D GLN* 2.8 36.0 + - - +
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Residues in contact with LEU1342 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1273D LEU* 4.7 8.5 - - + -
1277D GLU* 4.2 20.4 - - + +
1280D MET* 4.5 17.7 - - + -
1281D ILE* 3.5 31.6 - - + -
1338D ASN 3.3 17.5 + - - +
1339D GLY* 3.5 6.3 - - - +
1340D ALA 3.2 0.4 - - - -
1341D ALA* 1.3 76.6 - - - +
1343D ILE* 1.3 69.6 + - - +
1345D GLN* 3.3 15.1 + - - +
1346D LYS* 2.9 51.8 + - + +
1353D PHE* 5.4 0.2 - - + -
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Residues in contact with ILE1343 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1281D ILE* 3.8 35.7 - - + -
1339D GLY 3.1 17.2 + - - +
1340D ALA* 3.4 13.0 - - - +
1342D LEU* 1.3 78.2 - - - +
1344D GLN* 1.3 62.0 + - - +
1346D LYS* 3.3 1.9 + - - +
1347D THR* 2.8 42.0 + - - +
1353D PHE* 3.7 16.5 - - + -
1357D VAL* 5.7 4.9 - - + -
1371D LEU* 4.2 25.1 - - + -
1372D SER* 4.9 16.2 - - - +
1375D ILE* 4.7 9.4 - - + -
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Residues in contact with GLN1344 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74C GLN* 3.4 46.2 + - - +
1340D ALA 2.9 13.2 + - - +
1341D ALA* 3.5 11.7 - - - +
1343D ILE* 1.3 79.2 - - - +
1345D GLN* 1.3 61.9 + - - +
1347D THR* 3.2 13.6 + - - +
1348D ASP* 3.0 60.1 + - - +
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Residues in contact with GLN1345 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1341D ALA 2.8 21.0 + - - +
1342D LEU* 3.6 19.8 - - - +
1344D GLN* 1.3 74.9 - - - +
1346D LYS* 1.3 61.5 + - + +
1348D ASP* 3.3 4.5 + - - +
1349D GLU* 2.9 53.4 + - + +
1507D PRO* 4.9 18.0 - - - +
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Residues in contact with LYS1346 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1272D LEU 4.2 8.9 + - - -
1273D LEU* 3.8 29.1 - - + +
1277D GLU* 3.1 28.6 + - - -
1342D LEU* 2.9 34.1 + - + +
1343D ILE 3.6 1.6 - - - +
1345D GLN* 1.3 79.8 - - - +
1347D THR* 1.3 65.5 + - - +
1349D GLU* 3.7 24.5 + - + +
1350D ALA* 3.1 29.8 + - + +
1353D PHE* 3.6 28.3 - - + +
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Residues in contact with THR1347 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1343D ILE* 2.8 32.1 + - - +
1344D GLN* 3.2 17.1 + - - +
1346D LYS* 1.3 73.4 - - - +
1348D ASP* 1.3 69.6 + - - +
1350D ALA 3.3 15.8 - - - +
1353D PHE* 3.6 17.6 - - - -
1354D LYS* 3.3 48.0 + - + +
1357D VAL* 5.7 2.6 - - - +
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Residues in contact with ASP1348 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1344D GLN* 3.0 44.4 + - - +
1345D GLN* 4.0 4.5 - - - +
1347D THR* 1.3 83.6 - - - +
1349D GLU* 1.3 60.4 + - - +
1350D ALA 3.4 1.1 + - - -
1354D LYS* 5.4 3.3 + - - +
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Residues in contact with GLU1349 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1345D GLN* 2.9 50.5 + - + +
1346D LYS* 3.7 31.6 + - - +
1348D ASP* 1.3 75.4 - - - +
1350D ALA* 1.3 64.3 + - + +
1351D PRO* 4.3 3.7 - - - +
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Residues in contact with ALA1350 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1346D LYS* 3.1 16.7 + - + +
1347D THR 3.3 11.7 - - - +
1348D ASP 3.4 2.3 - - - -
1349D GLU* 1.3 87.3 - - + +
1351D PRO* 1.3 69.3 - - + +
1352D ASP* 4.5 3.8 - - + +
1353D PHE* 4.1 14.1 - - + +
1354D LYS* 3.3 16.5 + - - +
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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