Contacts of the helix formed by residues 1352 - 1373 (chain A) in PDB entry 1FP7
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 ASN1352 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1338A LYS* 4.1 7.3 - - + +
1343A VAL* 3.6 24.1 - - + +
1350A THR 3.5 6.0 + - - +
1351A GLU* 1.3 80.8 - - - +
1353A LEU* 1.3 57.0 + - - +
1354A GLU* 2.7 42.9 + - - +
1355A ALA* 3.8 12.7 - - + +
1356A LEU* 3.0 20.2 + - - +
1391A GLU* 3.8 5.2 + - - -
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Residues in contact with LEU1353 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1351A GLU* 3.5 27.8 - - + +
1352A ASN* 1.3 72.4 - - - +
1354A GLU* 1.3 67.5 + - + +
1356A LEU* 3.3 13.2 - - - +
1357A ARG* 2.7 35.7 + - - +
1390A ALA* 3.1 35.0 - - + +
1391A GLU* 5.1 1.7 + - + -
1394A LEU* 3.5 21.9 - - + +
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Residues in contact with GLU1354 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1352A ASN* 2.7 21.1 + - - +
1353A LEU* 1.3 83.1 - - - +
1355A ALA* 1.3 69.0 + - - +
1356A LEU 3.0 0.4 - - - -
1357A ARG* 2.7 27.1 + - - +
1358A GLU* 2.7 19.2 + - + +
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Residues in contact with ALA1355 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1337A LEU 3.6 1.2 - - - +
1338A LYS* 3.7 14.1 - - + +
1341A GLY* 3.0 24.7 - - - +
1343A VAL* 3.6 31.6 - - + +
1352A ASN* 3.1 14.9 + - - +
1354A GLU* 1.3 77.8 - - - +
1356A LEU* 1.3 54.4 + - - +
1358A GLU* 3.0 3.2 + - - +
1359A GLY 2.8 31.7 + - - -
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Residues in contact with LEU1356 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1334A VAL* 4.3 10.5 - - + -
1337A LEU* 4.1 15.5 - - + +
1338A LYS* 3.5 22.5 - - + +
1352A ASN 3.0 12.6 + - - +
1353A LEU* 3.3 10.1 - - - +
1355A ALA* 1.3 76.7 - - - +
1357A ARG* 1.3 57.6 + - - +
1359A GLY* 3.3 1.2 + - - -
1360A PHE* 3.1 24.6 + - - +
1391A GLU* 3.7 45.5 - - + +
1394A LEU* 4.1 18.2 - - + -
1395A LEU* 3.9 31.4 - - + +
1398A LEU* 5.7 2.0 - - + -
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Residues in contact with ARG1357 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1353A LEU* 2.7 18.8 + - - +
1354A GLU* 2.7 21.2 + - - +
1356A LEU* 1.3 72.9 - - - +
1358A GLU* 1.3 67.3 + - + +
1360A PHE* 3.5 13.4 - - - +
1361A ALA* 4.4 2.1 + - - +
1394A LEU* 3.8 32.1 - - + +
1397A GLU* 5.1 4.6 + - - -
1398A LEU* 4.1 35.3 - - + +
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Residues in contact with GLU1358 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1340A HIS 4.3 3.8 - - - +
1341A GLY* 3.9 18.2 - - - +
1354A GLU* 2.7 20.9 + - + +
1355A ALA* 3.7 5.6 - - - +
1357A ARG* 1.3 80.8 - - + +
1359A GLY* 1.3 64.3 + - - +
1360A PHE 3.1 1.8 - - - -
1361A ALA* 3.4 20.1 - - - +
1504A GLY* 5.5 1.7 - - - -
1505A ARG 5.6 0.2 + - - -
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Residues in contact with GLY1359 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1337A LEU* 2.9 33.7 - - - +
1340A HIS* 3.6 7.6 - - - -
1341A GLY* 3.4 11.6 - - - -
1355A ALA 2.8 10.1 + - - -
1358A GLU* 1.3 73.9 - - - +
1360A PHE* 1.3 55.5 + - - +
1361A ALA 3.0 2.7 - - - -
1362A ASN* 2.7 36.3 + - - +
1504A GLY* 5.5 0.2 - - - -
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Residues in contact with PHE1360 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1337A LEU* 4.2 7.2 - - - -
1356A LEU 3.1 12.3 + - - +
1357A ARG 3.5 16.4 - - - +
1358A GLU 3.1 0.2 - - - -
1359A GLY* 1.3 77.9 - - - +
1361A ALA* 1.3 50.4 + - - +
1363A LEU* 2.6 36.1 + - + +
1364A GLU* 2.6 71.2 + - + -
1367A ILE* 5.4 3.4 - - + -
1395A LEU* 3.8 15.9 - - + -
1398A LEU* 2.8 63.7 - - + -
1399A CYS* 3.8 15.0 - - - -
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Residues in contact with ALA1361 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1357A ARG 4.4 1.6 + - - +
1358A GLU* 3.4 18.2 + - - +
1360A PHE* 1.3 79.2 - - - +
1362A ASN* 1.3 64.1 + - - +
1364A GLU* 3.8 16.6 - - - +
1365A LYS* 3.2 21.8 + - - +
1505A ARG* 3.6 33.4 - - + +
1507A ARG* 4.9 7.4 - - - +
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Residues in contact with ASN1362 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1065A ILE* 3.4 12.9 - - - +
1066A THR* 2.9 45.9 - - - +
1337A LEU* 4.6 2.0 - - + -
1340A HIS* 3.4 29.8 + - + -
1359A GLY 2.7 15.8 + - - +
1361A ALA* 1.3 81.3 - - - +
1363A LEU* 1.3 60.3 + - - +
1365A LYS* 3.4 2.6 + - - +
1366A HIS* 2.9 30.3 + - - -
1496A PHE* 3.6 11.5 - - - -
1504A GLY* 3.3 24.3 - - - +
1505A ARG* 4.5 2.0 - - - +
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Residues in contact with LEU1363 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1065A ILE* 3.7 19.0 - - + +
1330A ILE* 3.7 18.6 - - + -
1332A ALA* 4.1 20.4 - - + -
1337A LEU* 4.2 15.2 - - + +
1359A GLY 3.8 0.2 + - - -
1360A PHE* 2.6 39.7 + - + +
1362A ASN* 1.3 75.5 - - - +
1364A GLU* 1.3 62.1 + - - +
1366A HIS* 3.2 2.9 + - - +
1367A ILE* 2.9 50.1 + - + +
1379A VAL* 4.2 17.9 - - + -
1381A ILE* 5.6 0.2 - - + -
1395A LEU* 4.5 4.9 - - + -
1399A CYS* 4.4 7.0 - - - -
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Residues in contact with GLU1364 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1360A PHE* 2.6 46.3 + - + +
1361A ALA* 3.8 11.9 - - - +
1363A LEU* 1.3 73.8 - - - +
1365A LYS* 1.3 61.1 + - - +
1367A ILE* 3.3 9.4 + - + +
1368A GLU* 3.1 45.6 + - + +
1401A LYS* 5.8 3.4 - - + -
1505A ARG* 4.1 11.4 + - - +
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Residues in contact with LYS1365 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1361A ALA 3.2 15.5 + - - +
1362A ASN 3.7 4.3 - - - +
1363A LEU 3.3 0.2 - - - -
1364A GLU* 1.3 78.2 - - - +
1366A HIS* 1.3 52.2 + - - +
1368A GLU* 3.1 10.7 + - + +
1369A ASN* 2.6 54.2 + - - +
1372A LYS* 3.6 9.3 - - - +
1456A THR 5.3 0.6 + - - -
1457A GLU 3.4 17.8 + - - -
1458A ILE 3.5 14.6 - - - -
1459A TYR 4.4 1.8 - - - -
1460A GLY* 3.8 22.4 - - - +
1496A PHE* 3.6 26.9 - - + -
1505A ARG* 3.6 39.9 - - + +
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Residues in contact with HIS1366 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1064A ALA 4.2 0.4 - - - -
1065A ILE* 3.8 16.2 - - + -
1066A THR* 3.4 18.0 + - - -
1306A ALA* 3.1 31.2 - - + +
1307A ASP* 3.1 25.6 - - - -
1330A ILE* 3.5 20.2 - - + -
1362A ASN* 2.9 29.7 + - - -
1363A LEU 3.2 4.4 + - - +
1365A LYS* 1.3 73.0 - - - +
1367A ILE* 1.3 67.6 + - - +
1369A ASN* 4.2 7.2 + - - +
1370A ILE* 2.8 33.1 + - - +
1496A PHE* 2.8 32.3 - + - -
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Residues in contact with ILE1367 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1330A ILE* 4.0 10.5 - - + -
1360A PHE* 5.4 3.4 - - + -
1363A LEU* 2.9 50.3 + - + +
1364A GLU* 3.4 10.5 - - - +
1366A HIS* 1.3 78.6 - - - +
1368A GLU* 1.3 65.0 + - - +
1370A ILE* 3.2 8.5 + - - +
1371A GLY* 3.1 15.1 + - - -
1377A ALA* 4.6 9.6 - - + +
1379A VAL* 3.6 21.5 - - + -
1399A CYS* 5.9 1.1 - - - -
1401A LYS* 3.2 39.6 - - + -
1402A ALA* 4.1 17.5 - - + -
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Residues in contact with GLU1368 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1364A GLU* 3.1 34.3 + - - +
1365A LYS* 3.4 10.5 + - + +
1367A ILE* 1.3 80.6 - - - +
1369A ASN* 1.3 56.9 + - - +
1371A GLY* 2.5 29.3 + - - -
1372A LYS* 3.1 14.6 + - - +
1401A LYS* 3.5 28.0 - - + +
1505A ARG* 3.8 22.7 + - - -
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Residues in contact with ASN1369 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1306A ALA* 5.5 5.4 - - + +
1307A ASP* 5.1 0.8 - - - +
1365A LYS* 2.6 51.4 + - - +
1366A HIS* 3.7 9.2 + - - +
1368A GLU* 1.3 66.5 - - - +
1370A ILE* 1.3 55.3 + - + +
1371A GLY 2.6 5.8 + - - -
1372A LYS* 2.6 36.9 + - - +
1373A PHE* 3.2 15.8 - - + -
1457A GLU 3.5 10.9 - - - +
1458A ILE* 2.9 46.4 + - + +
1496A PHE* 3.9 9.5 - - - -
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Residues in contact with ILE1370 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1063A THR* 4.3 7.6 - - + -
1306A ALA* 4.4 12.3 - - + +
1310A ALA* 5.4 3.8 - - + -
1314A TYR* 4.2 7.2 - - + +
1328A THR* 4.1 20.6 - - + -
1330A ILE* 3.7 34.5 - - + -
1366A HIS 2.8 30.4 + - - +
1367A ILE* 3.5 7.9 - - - +
1369A ASN* 1.3 72.2 - - + +
1371A GLY* 1.3 58.2 + - - +
1372A LYS 3.4 0.2 - - - -
1373A PHE* 3.7 16.3 + - - +
1375A VAL* 3.4 38.5 + - + +
1377A ALA* 3.9 22.2 - - + -
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Residues in contact with GLY1371 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1367A ILE 3.1 7.1 + - - -
1368A GLU* 2.5 21.4 + - - -
1370A ILE* 1.3 69.8 - - - +
1372A LYS* 1.3 55.5 + - - -
1373A PHE 2.9 5.6 - - - -
1374A GLY* 3.0 19.0 + - - -
1375A VAL 4.6 6.1 - - - -
1401A LYS* 5.6 4.9 - - - -
1438A HIS* 5.3 0.3 - - - -
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Residues in contact with LYS1372 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1365A LYS* 3.6 14.8 - - - +
1368A GLU* 3.1 14.6 + - - +
1369A ASN* 2.6 29.4 + - - +
1371A GLY* 1.3 70.6 - - - +
1373A PHE* 1.3 60.6 + - + +
1374A GLY 3.4 0.7 - - - -
1438A HIS* 4.0 12.7 + - - +
1440A LEU* 4.2 20.7 - - + +
1457A GLU* 2.6 58.3 + - + +
1458A ILE* 4.6 3.1 - - + -
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Residues in contact with PHE1373 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1306A ALA 5.7 3.1 - - - -
1310A ALA* 6.0 0.2 - - + -
1311A GLU* 4.0 18.6 - - + -
1314A TYR* 3.3 52.7 - + + -
1315A ASP* 3.6 11.4 - - - -
1369A ASN* 3.2 23.6 - - + -
1370A ILE* 3.9 9.6 - - - +
1371A GLY 2.9 1.4 - - - -
1372A LYS* 1.3 81.1 - - - +
1374A GLY* 1.3 61.2 + - - +
1375A VAL* 3.5 8.0 + - + +
1437A PHE* 3.7 6.1 - + + -
1438A HIS* 3.4 40.8 + - - +
1440A LEU* 3.4 38.8 - - + -
1458A ILE* 3.5 27.8 - - + -
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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
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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) + - + + + + + -
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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