Contacts of the helix formed by residues 1327 - 1350 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1323B LEU 5.4 0.7 - - - +
1324B PRO* 3.8 17.3 - - - +
1325B HIS 3.4 0.6 - - - -
1326B MET* 1.3 74.9 - - - +
1328B PRO* 1.3 70.0 - - + +
1330B ILE* 2.9 47.0 + - + +
1331B ARG* 4.0 1.0 + - - +
1416B LEU* 4.4 7.4 - - - +
1419B GLN* 3.1 28.3 + - - +
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Residues in contact with PRO1328 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1284B ASN* 3.1 33.4 + - - +
1287B GLU* 3.7 32.8 - - + +
1288B LEU* 4.0 13.9 - - + -
1291B CYS* 5.0 8.5 - - + -
1325B HIS 3.4 13.0 - - - +
1326B MET* 3.0 6.3 - - - +
1327B GLN* 1.3 94.3 - - + +
1329B TYR* 1.3 61.8 + - + +
1330B ILE 3.2 0.7 + - - -
1331B ARG* 3.2 5.0 + - + +
1332B PHE* 3.1 11.4 + - - +
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Residues in contact with TYR1329 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1252B TYR* 2.7 28.1 + + - -
1288B LEU* 3.9 21.4 - - + +
1291B CYS* 4.2 11.9 - - - -
1292B ASN* 2.5 35.1 + - - -
1326B MET* 3.0 34.7 + - + +
1327B GLN 2.9 0.4 + - - -
1328B PRO* 1.3 75.4 - - + +
1330B ILE* 1.3 66.0 + - - +
1332B PHE* 3.8 2.2 - - - +
1333B CYS* 3.0 31.2 + - - +
1378B PRO* 3.4 36.6 - - + -
1381B ARG* 4.6 3.6 - - + +
1382B VAL* 3.3 31.2 - - + -
1385B TYR* 5.7 0.4 - + - -
1416B LEU* 4.9 0.4 - - + -
1420B VAL* 4.0 10.4 - - + +
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Residues in contact with ILE1330 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1327B GLN* 2.9 50.9 + - + +
1329B TYR* 1.3 77.2 - - - +
1331B ARG* 1.3 64.1 + - - +
1333B CYS* 4.2 0.5 - - - +
1334B SER* 3.0 28.2 + - - +
1416B LEU* 4.7 2.5 - - + -
1419B GLN* 4.0 33.0 - - + +
1420B VAL* 4.0 24.5 - - + +
1423B GLY* 4.2 14.8 - - - -
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Residues in contact with ARG1331 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1283B VAL* 4.0 18.8 + - + +
1284B ASN* 3.9 30.9 - - - +
1287B GLU* 5.2 3.1 - - - -
1327B GLN 4.0 0.6 + - - +
1328B PRO* 3.2 10.3 + - + +
1330B ILE* 1.3 80.7 - - - +
1332B PHE* 1.3 65.1 + - - +
1334B SER* 2.9 18.4 + - - -
1335B ARG* 3.3 43.4 + - - +
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Residues in contact with PHE1332 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1281B ILE 4.5 3.6 - - - -
1282B PHE 3.8 20.2 - - - -
1283B VAL* 4.0 13.5 - - + +
1284B ASN* 3.1 21.0 + - - +
1285B TRP* 3.5 30.7 - + - -
1288B LEU* 3.7 18.8 - - + -
1328B PRO 3.1 10.2 + - - +
1329B TYR* 4.0 3.8 - - - +
1330B ILE 3.3 0.4 - - - -
1331B ARG* 1.3 80.0 - - - +
1333B CYS* 1.3 61.0 + - - +
1335B ARG* 3.1 4.3 + - - +
1336B GLN* 3.0 56.3 + - + +
1375B ILE* 3.5 28.5 - - + -
1378B PRO* 3.8 22.4 - - + -
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Residues in contact with CYS1333 (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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67A LEU* 4.7 3.8 - - + -
70A LEU* 4.3 6.0 - - + +
1329B TYR* 3.0 23.8 + - - +
1332B PHE* 1.3 85.1 - - - +
1334B SER* 1.3 61.8 + - - +
1335B ARG 3.2 0.9 + - - -
1336B GLN* 3.4 34.8 + - - +
1337B LEU* 4.7 1.4 + - - +
1378B PRO* 4.5 3.4 - - - -
1379B MET* 3.8 32.1 - - - -
1382B VAL* 4.9 0.4 - - - -
1420B VAL* 3.5 24.2 - - + -
1424B VAL* 3.6 15.3 - - + +
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Residues in contact with SER1334 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1330B ILE* 3.0 17.2 + - - +
1331B ARG* 2.9 19.6 + - - -
1333B CYS* 1.3 77.3 - - - +
1335B ARG* 1.3 68.1 + - - +
1337B LEU* 5.4 1.5 - - - +
1338B ASN* 4.8 3.3 + - - -
1423B GLY* 3.5 30.1 - - - -
1424B VAL* 3.8 13.8 - - - +
1427B LYS* 3.3 26.9 - - - +
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Residues in contact with ARG1335 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1280B MET 4.2 6.1 - - - +
1283B VAL* 3.8 28.7 - - + -
1331B ARG* 3.6 44.3 + - - +
1332B PHE 3.1 3.8 + - - +
1333B CYS 3.1 0.4 - - - -
1334B SER* 1.3 88.5 + - - +
1336B GLN* 1.3 63.0 + - - +
1337B LEU 3.4 3.0 + - - -
1338B ASN* 3.5 20.1 + - - +
1339B GLY 3.5 6.6 + - - -
1427B LYS* 3.4 40.9 - - - +
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Residues in contact with GLN1336 (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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70A LEU* 4.1 24.0 + - + +
1280B MET 5.3 0.2 - - - -
1281B ILE 5.4 2.4 - - - +
1283B VAL* 4.9 5.6 - - - -
1332B PHE* 3.0 45.0 + - + +
1333B CYS* 3.4 29.8 + - - +
1335B ARG* 1.3 75.6 - - - +
1337B LEU* 1.3 72.4 + - - +
1339B GLY* 2.9 13.1 + - - +
1340B ALA* 2.9 14.0 + - - +
1375B ILE* 3.8 22.2 + - + +
1376B LEU* 3.7 28.9 - - - +
1379B MET* 4.2 7.6 + - - +
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Residues in contact with LEU1337 (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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69A PRO* 5.1 3.1 - - + +
70A LEU* 3.9 35.2 - - + +
73A PRO* 4.2 24.9 - - + -
1333B CYS 4.7 1.4 + - - +
1334B SER 5.4 1.5 - - - +
1335B ARG 3.4 1.6 - - - -
1336B GLN* 1.3 82.3 - - - +
1338B ASN* 1.3 63.3 + - - +
1340B ALA* 2.9 25.4 + - + +
1341B ALA* 2.9 16.2 + - + +
1424B VAL* 6.5 0.4 - - + -
1428B GLU* 4.9 12.6 - - + +
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Residues in contact with ASN1338 (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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1280B MET* 4.0 19.6 - - + +
1334B SER 4.8 3.6 + - - -
1335B ARG* 3.5 16.2 + - - +
1336B GLN 3.2 0.6 - - - -
1337B LEU* 1.3 81.5 - - - +
1339B GLY* 1.3 59.3 + - - +
1341B ALA* 3.8 8.0 + - - +
1342B LEU* 3.3 21.1 + - - +
1427B LYS* 4.3 10.5 - - - +
1431B ASP* 3.0 27.3 + - - +
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Residues in contact with GLY1339 (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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1280B MET 3.1 28.5 + - - -
1281B ILE* 4.1 7.0 - - - +
1335B ARG 3.5 3.0 + - - -
1336B GLN* 2.9 10.3 + - - -
1338B ASN* 1.3 79.2 - - - +
1340B ALA* 1.3 63.9 + - - +
1342B LEU* 3.4 5.3 + - - +
1343B ILE* 3.1 31.2 + - - +
1375B ILE* 6.3 0.4 - - - -
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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
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73A PRO* 5.6 9.6 - - + -
1336B GLN 2.9 10.6 + - - +
1337B LEU* 2.9 19.5 + - + +
1339B GLY* 1.3 76.8 - - - +
1341B ALA* 1.3 62.5 + - - +
1343B ILE* 3.2 14.2 + - - +
1344B GLN* 2.9 23.3 + - - +
1372B SER* 5.9 7.4 - - - -
1375B ILE* 5.6 7.3 - - + +
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Residues in contact with ALA1341 (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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1337B LEU* 2.9 16.0 + - + +
1338B ASN* 4.0 8.7 - - - +
1340B ALA* 1.3 75.8 - - - +
1342B LEU* 1.3 52.2 + - - +
1344B GLN* 3.3 8.4 + - - +
1345B GLN* 2.8 36.4 + - - +
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Residues in contact with LEU1342 (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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1273B LEU* 4.7 8.5 - - + -
1277B GLU* 4.2 20.4 - - + +
1280B MET* 4.5 17.7 - - + -
1281B ILE* 3.6 31.4 - - + -
1338B ASN 3.3 17.5 + - - +
1339B GLY* 3.5 6.3 - - - +
1340B ALA 3.2 0.4 - - - -
1341B ALA* 1.3 76.8 - - - +
1343B ILE* 1.3 69.5 + - - +
1345B GLN* 3.3 15.5 + - - +
1346B LYS* 2.9 52.0 + - + +
1353B PHE* 5.4 0.2 - - + -
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Residues in contact with ILE1343 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1281B ILE* 3.8 35.7 - - + -
1339B GLY 3.1 17.0 + - - +
1340B ALA* 3.4 13.0 - - - +
1342B LEU* 1.3 78.4 - - - +
1344B GLN* 1.3 62.6 + - - +
1346B LYS* 3.3 1.9 + - - +
1347B THR* 2.8 41.8 + - - +
1353B PHE* 3.7 16.5 - - + -
1357B VAL* 5.7 4.9 - - + -
1371B LEU* 4.2 24.9 - - + -
1372B SER* 4.9 16.2 - - - +
1375B ILE* 4.7 9.4 - - + -
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Residues in contact with GLN1344 (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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74A GLN* 3.4 46.2 + - - +
1340B ALA 2.9 13.2 + - - +
1341B ALA* 3.5 11.7 - - - +
1343B ILE* 1.3 79.0 - - - +
1345B GLN* 1.3 62.3 + - - +
1347B THR* 3.2 13.6 + - - +
1348B ASP* 3.0 60.5 + - - +
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Residues in contact with GLN1345 (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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1341B ALA 2.8 21.0 + - - +
1342B LEU* 3.6 19.7 - - - +
1344B GLN* 1.3 74.7 - - - +
1346B LYS* 1.3 61.3 + - + +
1348B ASP* 3.3 4.5 + - - +
1349B GLU* 2.9 53.6 + - + +
1507B PRO* 4.9 18.0 - - - +
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Residues in contact with LYS1346 (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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1272B LEU 4.2 8.9 + - - -
1273B LEU* 3.8 28.7 - - + +
1277B GLU* 3.1 28.8 + - - -
1342B LEU* 2.9 33.8 + - + +
1343B ILE 3.6 1.6 - - - +
1345B GLN* 1.3 80.5 - - - +
1347B THR* 1.3 64.9 + - - +
1349B GLU* 3.7 25.1 + - + +
1350B ALA* 3.1 30.0 + - + +
1353B PHE* 3.6 28.1 - - + +
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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 ILE* 2.8 31.9 + - - +
1344B GLN* 3.2 17.1 + - - +
1346B LYS* 1.3 73.6 - - - +
1348B ASP* 1.3 69.8 + - - +
1350B ALA 3.3 15.8 - - - +
1353B PHE* 3.6 17.6 - - - -
1354B LYS* 3.3 48.0 + - + +
1357B VAL* 5.7 2.6 - - - +
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Residues in contact with ASP1348 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1344B GLN* 3.0 44.0 + - - +
1345B GLN* 4.0 4.7 - - - +
1347B THR* 1.3 83.4 - - - +
1349B GLU* 1.3 60.4 + - - +
1350B ALA 3.4 1.1 + - - -
1354B LYS* 5.4 3.3 + - - +
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Residues in contact with GLU1349 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1345B GLN* 2.9 50.5 + - + +
1346B LYS* 3.7 31.0 + - - +
1348B ASP* 1.3 75.4 - - - +
1350B ALA* 1.3 64.1 + - + +
1351B PRO* 4.3 3.5 - - - +
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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 LYS* 3.1 16.7 + - + +
1347B THR 3.3 11.5 - - - +
1348B ASP 3.4 2.3 - - - -
1349B GLU* 1.3 87.4 - - + +
1351B PRO* 1.3 69.3 - - + +
1352B ASP* 4.5 3.8 - - + +
1353B PHE* 4.1 13.9 - - + +
1354B LYS* 3.3 16.3 + - - +
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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