Contacts of the helix formed by residues 1418 - 1438 (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 GLY1418 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1411B THR* 5.8 0.4 - - - -
1414B PRO* 3.4 19.8 + - - +
1415B ILE 2.9 9.1 + - - -
1417B LYS* 1.3 75.3 - - - +
1419B LEU* 1.3 58.1 + - - +
1420B HIS 3.4 3.1 - - - -
1421B HIS* 3.3 10.0 + - - +
1422B LYS* 2.9 31.0 + - - +
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Residues in contact with LEU1419 (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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219A THR* 4.2 12.1 - - + -
1415B ILE 3.6 1.2 + - - -
1416B ARG* 3.1 60.8 + - + +
1417B LYS 3.3 1.8 + - - -
1418B GLY* 1.3 75.9 - - - +
1420B HIS* 1.3 64.3 + - - +
1422B LYS* 3.3 17.8 + - + +
1423B ILE* 3.2 42.6 + - + +
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Residues in contact with HIS1420 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186A ILE* 2.9 43.0 - - + +
188A GLY* 3.6 22.9 - - - +
191A ILE* 4.1 1.6 - - + +
219A THR* 3.7 19.2 - - + +
220A ASN* 3.5 21.6 + - - -
223A THR* 2.7 33.6 + - - -
1413B HIS 5.7 0.7 - - - +
1415B ILE* 3.8 20.9 + - + +
1416B ARG* 3.6 18.6 - - + +
1418B GLY 3.4 0.6 - - - -
1419B LEU* 1.3 79.5 - - - +
1421B HIS* 1.3 57.8 + - - +
1423B ILE* 3.3 5.0 + - - +
1424B LEU* 3.0 26.6 + - - +
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Residues in contact with HIS1421 (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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187A ASP* 5.0 3.0 + - - -
188A GLY 5.1 1.7 - - - +
1407B ILE* 4.5 7.2 - - + -
1408B PRO* 2.9 25.5 + - + -
1409B VAL 2.8 30.6 + - - -
1411B THR* 3.5 45.0 + - + -
1413B HIS 5.8 0.2 - - - +
1418B GLY* 3.3 11.0 + - - +
1420B HIS* 1.3 75.9 - - - +
1422B LYS* 1.3 61.1 + - - +
1424B LEU* 3.6 27.5 - - + +
1425B LEU* 2.8 53.0 + - + +
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Residues in contact with LYS1422 (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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525A GLU* 2.9 38.4 + - + +
526A PRO* 4.7 1.0 - - - +
528A LEU* 3.5 21.6 - - + +
529A ASP* 2.8 36.1 + - - +
1418B GLY 2.9 18.3 + - - +
1419B LEU* 3.5 19.6 - - + +
1420B HIS 3.2 0.2 - - - -
1421B HIS* 1.3 78.7 - - - +
1423B ILE* 1.3 59.4 + - + +
1425B LEU* 3.4 7.4 + - - -
1426B ALA* 3.0 24.3 + - - +
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Residues in contact with ILE1423 (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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186A ILE* 3.8 24.9 - - + -
215A GLN* 3.5 40.2 - - + +
216A GLU* 5.7 2.2 - - + -
219A THR* 3.9 20.9 - - + +
525A GLU* 4.1 9.9 - - - +
1419B LEU* 3.2 31.6 + - + +
1420B HIS 3.6 6.5 - - - +
1421B HIS 3.2 0.2 - - - -
1422B LYS* 1.3 76.2 - - + +
1424B LEU* 1.3 64.0 + - - +
1426B ALA* 3.3 7.1 + - - +
1427B ASN* 2.8 44.7 + - - +
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Residues in contact with LEU1424 (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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185A ASN* 3.9 11.2 - - - +
186A ILE* 3.6 25.1 - - + +
187A ASP* 3.9 24.2 - - + -
1340B TYR* 3.5 30.2 - - + +
1383B GLY 3.9 10.1 - - - +
1384B THR* 3.8 14.6 - - + -
1407B ILE* 4.1 7.0 - - + -
1420B HIS 3.0 14.5 + - - +
1421B HIS* 3.2 31.2 + - + +
1423B ILE* 1.3 77.1 - - - +
1425B LEU* 1.3 58.0 + - - +
1427B ASN* 3.3 5.4 + - - +
1428B PHE* 3.0 26.5 + - - +
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Residues in contact with LEU1425 (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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528A LEU* 4.1 11.2 - - + -
548A ILE* 3.7 45.5 - - + -
1407B ILE* 3.5 31.9 - - + -
1408B PRO 4.3 3.8 - - - +
1409B VAL* 4.2 6.7 - - + +
1421B HIS* 2.8 47.6 + - + +
1422B LYS* 3.6 7.4 - - - +
1424B LEU* 1.3 73.6 - - - +
1426B ALA* 1.3 67.0 + - - +
1428B PHE* 3.3 2.4 + - + +
1429B LEU* 3.0 31.3 + - - +
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Residues in contact with ALA1426 (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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521A ALA* 3.8 13.0 - - + +
524A ILE* 4.1 14.1 - - + +
525A GLU* 3.3 40.6 - - + +
528A LEU* 3.9 4.4 - - + +
1422B LYS 3.0 14.7 + - - +
1423B ILE 3.3 5.8 + - - +
1425B LEU* 1.3 77.3 - - - +
1427B ASN* 1.3 57.6 + - - +
1429B LEU* 3.8 2.1 - - - +
1430B ALA* 2.9 29.5 + - - +
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Residues in contact with ASN1427 (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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215A GLN* 4.4 7.7 + - - +
216A GLU* 4.7 6.8 + - - +
517A GLY 4.9 1.7 - - - +
518A LYS* 5.5 2.4 - - - +
521A ALA* 3.9 19.7 - - - +
525A GLU* 4.8 0.2 + - - -
1340B TYR* 4.1 2.5 - - - -
1384B THR* 3.8 14.2 - - + +
1387B GLN* 3.0 33.1 - - - +
1423B ILE* 2.8 41.8 + - - +
1424B LEU 3.7 6.7 - - - +
1425B LEU 3.2 0.2 - - - -
1426B ALA* 1.3 76.1 - - - +
1428B PHE* 1.3 66.1 + - - +
1429B LEU 3.1 0.2 - - - -
1430B ALA* 4.3 0.7 - - - -
1431B GLN* 2.9 33.1 + - - +
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Residues in contact with PHE1428 (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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544A LEU* 4.9 1.6 - - + -
548A ILE* 5.4 3.6 - - + -
1340B TYR* 3.7 24.1 - + + -
1405B PHE* 3.4 48.4 - - + -
1406B LEU 3.5 6.1 - - - -
1407B ILE* 3.4 47.1 - - + -
1424B LEU 3.0 13.6 + - - +
1425B LEU 3.4 7.6 - - - +
1427B ASN* 1.3 77.9 - - - +
1429B LEU* 1.3 81.6 + - + +
1432B THR* 3.9 21.7 + - - +
1475B SER* 4.0 19.1 - - - -
1476B ILE 4.3 0.9 - - - -
1477B VAL* 3.8 21.8 - - + -
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Residues in contact with LEU1429 (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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524A ILE* 3.9 26.7 - - + -
528A LEU* 4.0 8.7 - - + -
541A THR* 4.7 8.3 + - + +
544A LEU* 3.5 41.0 - - + +
545A ILE* 3.7 25.4 - - + +
548A ILE* 3.9 20.6 - - + -
1056B LYS* 5.3 0.2 + - - -
1425B LEU 3.0 20.1 + - - +
1426B ALA 3.8 2.9 - - - +
1428B PHE* 1.3 88.8 - - + +
1430B ALA* 1.3 64.9 + - - +
1432B THR* 3.2 19.7 + - - -
1433B GLU* 3.2 11.3 + - - +
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Residues in contact with ALA1430 (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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517A GLY 3.6 10.8 - - - +
520A LEU* 3.6 12.0 - - + +
521A ALA* 3.3 33.2 - - + +
524A ILE* 3.8 8.0 - - + +
1426B ALA 2.9 19.5 + - - +
1427B ASN* 3.9 2.5 - - - +
1429B LEU* 1.3 76.4 - - - +
1431B GLN* 1.3 58.8 + - + +
1433B GLU* 3.3 3.3 + - - +
1434B ALA* 2.8 32.2 + - - +
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Residues in contact with GLN1431 (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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514A VAL 5.4 1.4 + - - -
517A GLY* 3.6 28.0 + - - -
518A LYS* 4.7 0.8 - - - +
1340B TYR* 3.6 5.6 - - - +
1387B GLN* 3.4 43.7 + - - +
1391B TYR* 3.1 9.3 - - + -
1395B HIS* 2.9 33.7 + - + -
1405B PHE* 3.7 20.6 - - + -
1427B ASN* 2.9 21.5 + - - +
1428B PHE 4.2 0.4 - - - +
1429B LEU 3.3 0.2 - - - -
1430B ALA* 1.3 76.3 - - - +
1432B THR* 1.3 56.6 + - - +
1434B ALA* 3.3 4.6 + - - +
1435B LEU* 2.9 34.9 + - - +
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Residues in contact with THR1432 (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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544A LEU* 4.7 1.7 - - - +
1056B LYS* 3.1 25.6 + - - +
1405B PHE* 3.6 38.4 - - + -
1428B PHE* 3.9 7.0 + - - +
1429B LEU* 3.2 11.9 + - - -
1431B GLN* 1.3 72.8 - - - +
1433B GLU* 1.3 68.4 + - - +
1435B LEU* 3.4 8.0 + - - +
1436B MET* 3.0 24.3 + - - +
1471B ARG 5.2 0.2 - - - +
1473B THR* 3.4 25.5 + - - +
1475B SER* 3.7 15.3 + - - +
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Residues in contact with GLU1433 (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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520A LEU* 3.7 32.3 - - + +
524A ILE* 3.8 12.5 - - - +
537A HIS* 2.8 38.0 + - - +
538A ASP* 3.7 9.3 + - - +
541A THR* 3.6 19.1 - - + +
1056B LYS* 4.1 8.3 - - - +
1429B LEU 3.2 14.3 + - - +
1430B ALA 3.5 2.5 - - - +
1431B GLN 3.2 0.2 - - - -
1432B THR* 1.3 82.6 + - - +
1434B ALA* 1.3 53.3 + - - +
1436B MET* 3.3 3.5 + - + +
1437B LYS* 2.8 55.8 + - + +
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Residues in contact with ALA1434 (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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516A LEU* 3.7 22.5 - - + +
517A GLY* 4.2 10.1 - - - +
520A LEU* 3.5 19.7 - - + +
1395B HIS* 3.8 15.9 - - - +
1430B ALA 2.8 17.5 + - - +
1431B GLN 3.5 5.6 - - - +
1433B GLU* 1.3 73.6 - - - +
1435B LEU* 1.3 60.6 + - - +
1438B GLY* 2.8 31.2 + - - +
1467B PHE* 5.4 0.2 - - - +
1469B GLY* 4.5 0.5 - - - -
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Residues in contact with LEU1435 (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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1391B TYR* 6.0 1.3 - - + -
1394B ILE* 3.7 31.6 - - + -
1395B HIS* 3.5 30.7 - - + +
1403B CYS* 5.0 1.8 - - - -
1405B PHE* 4.0 19.7 - - + -
1431B GLN* 2.9 21.6 + - + +
1432B THR 3.4 4.2 + - - +
1434B ALA* 1.3 76.1 - - - +
1436B MET* 1.3 56.9 + - - +
1469B GLY* 3.3 6.8 - - - -
1470B ASN 3.1 8.3 + - - -
1471B ARG* 3.0 52.1 + - + +
1473B THR* 3.4 26.2 - - + -
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Residues in contact with MET1436 (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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538A ASP* 3.5 39.9 - - + +
1025B LEU* 3.6 34.8 - - + +
1026B ARG* 3.8 29.2 + - + +
1029B PHE* 4.0 23.1 - - + -
1056B LYS* 3.9 13.9 - - + -
1432B THR 3.0 17.8 + - - +
1433B GLU* 3.6 4.0 - - + +
1435B LEU* 1.3 78.3 - - - +
1437B LYS* 1.3 75.6 + - + +
1470B ASN* 3.2 19.8 + - - -
1471B ARG 4.3 1.1 - - - +
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Residues in contact with LYS1437 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
516A LEU* 6.1 0.9 - - + -
520A LEU* 4.9 17.6 - - + +
1026B ARG* 3.2 58.9 + - + +
1433B GLU* 2.8 40.1 + - + +
1434B ALA* 4.8 1.1 - - - -
1436B MET* 1.3 91.1 - - + +
1438B GLY* 1.3 70.5 + - - +
1439B LYS 3.9 0.2 + - - -
1443B GLU* 4.6 3.6 + - - -
1467B PHE 4.8 0.3 - - - +
1468B GLU 5.1 1.7 - - - +
1469B GLY* 4.5 1.8 - - - -
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Residues in contact with GLY1438 (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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516A LEU* 3.7 14.9 - - - +
1026B ARG* 4.0 1.6 + - - -
1434B ALA 2.8 22.6 + - - -
1436B MET 3.6 0.8 - - - -
1437B LYS* 1.3 91.4 - - - +
1439B LYS* 1.3 62.6 + - - +
1443B GLU* 4.3 0.9 - - - +
1467B PHE* 3.3 20.6 - - - -
1469B GLY* 3.8 9.0 - - - -
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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) + - + + + + + -
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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