Contacts of the helix formed by residues 1431 - 1455 (chain A) in PDB entry 4Z4Q
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 ASP1431 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1382A ILE* 4.2 4.8 - - - +
1429A ASN* 3.0 28.7 + - - +
1430A THR* 1.3 75.7 - - - +
1432A VAL* 1.3 61.0 + - - +
1433A VAL* 3.0 32.6 + - - +
1434A VAL* 3.7 32.0 + - + +
1435A LEU* 4.2 4.5 - - - +
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Residues in contact with VAL1432 (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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1379A ILE* 3.8 31.6 - - + +
1382A ILE* 3.7 26.9 - - + -
1430A THR 3.2 7.8 + - - +
1431A ASP* 1.3 73.2 + - - +
1433A VAL* 1.3 66.3 + - + +
1434A VAL 3.5 0.7 - - - -
1435A LEU* 3.5 6.1 + - - +
1436A GLN* 2.9 51.4 + - - +
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Residues in contact with VAL1433 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1431A ASP* 3.0 12.3 + - - +
1432A VAL* 1.3 80.9 - - + +
1434A VAL* 1.3 69.8 + - - +
1436A GLN* 3.2 15.1 + - - +
1437A GLU* 2.9 30.3 + - + +
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Residues in contact with VAL1434 (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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1429A ASN* 5.3 3.6 - - - +
1431A ASP* 3.4 35.4 + - + +
1433A VAL* 1.3 80.4 - - - +
1435A LEU* 1.3 82.8 + - + +
1437A GLU* 3.2 10.5 + - + +
1438A GLU* 3.1 19.1 + - - +
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Residues in contact with LEU1435 (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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1371A ARG* 4.8 5.6 - - - +
1375A VAL* 4.0 17.2 - - + +
1378A LEU* 4.0 27.1 - - + -
1379A ILE* 3.9 26.9 - - + -
1382A ILE* 4.0 22.9 - - + -
1429A ASN* 5.5 3.1 - - - +
1431A ASP 4.2 7.6 - - - +
1432A VAL* 3.5 8.7 + - - +
1433A VAL 3.2 0.2 - - - -
1434A VAL* 1.3 88.8 - - + +
1436A GLN* 1.3 59.1 + - - +
1438A GLU* 2.9 23.8 + - - +
1439A GLU* 2.9 25.8 + - - +
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Residues in contact with GLN1436 (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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1379A ILE* 3.8 23.8 - - + +
1432A VAL* 2.9 40.2 + - - +
1433A VAL* 3.2 14.3 + - - +
1435A LEU* 1.3 78.0 - - - +
1437A GLU* 1.3 60.9 + - - +
1439A GLU* 3.3 16.6 + - - +
1440A ALA* 3.1 21.5 + - - +
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Residues in contact with GLU1437 (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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1433A VAL* 2.9 24.8 + - + +
1434A VAL* 3.2 12.8 + - + +
1436A GLN* 1.3 75.0 - - - +
1438A GLU* 1.3 63.7 + - - +
1440A ALA* 3.2 8.7 + - - +
1441A GLU* 3.0 21.6 + - - +
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Residues in contact with GLU1438 (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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1371A ARG* 2.9 50.3 + - - +
1375A VAL* 3.6 10.6 - - + +
1434A VAL 3.1 11.2 + - - +
1435A LEU* 2.9 16.5 + - - +
1437A GLU* 1.3 73.6 - - - +
1439A GLU* 1.3 65.0 + - - +
1441A GLU* 3.2 6.9 + - + +
1442A LEU* 2.9 36.5 + - + +
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Residues in contact with GLU1439 (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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1372A LEU* 3.5 24.8 - - + +
1375A VAL* 4.4 7.5 - - + +
1376A GLU* 3.5 21.7 - - - +
1379A ILE* 3.3 28.4 - - - +
1435A LEU 2.9 10.6 + - - +
1436A GLN* 3.4 19.0 + - - +
1437A GLU 3.3 0.2 - - - -
1438A GLU* 1.3 76.2 - - - +
1440A ALA* 1.3 63.4 + - - +
1442A LEU* 3.4 4.1 + - - +
1443A ARG* 3.0 59.2 + - - +
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Residues in contact with ALA1440 (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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1436A GLN 3.1 9.7 + - - +
1437A GLU* 3.5 11.0 - - - +
1438A GLU 3.2 0.2 - - - -
1439A GLU* 1.3 79.9 - - - +
1441A GLU* 1.3 63.4 + - - +
1443A ARG* 3.2 11.9 + - - +
1444A GLU* 3.0 34.5 + - - +
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Residues in contact with GLU1441 (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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1437A GLU 3.0 15.7 + - - +
1438A GLU* 3.2 7.8 + - + +
1440A ALA* 1.3 74.7 - - - +
1442A LEU* 1.3 64.5 + - + +
1444A GLU* 3.3 14.1 + - - +
1445A LYS* 3.0 24.1 + - - +
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Residues in contact with LEU1442 (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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1368A ALA* 4.0 26.9 - - + +
1371A ARG* 3.5 31.9 - - + +
1372A LEU* 3.9 29.8 - - + -
1375A VAL* 4.6 3.4 - - + -
1438A GLU* 2.9 40.3 + - + +
1439A GLU 3.7 3.1 - - - +
1441A GLU* 1.3 75.8 - - + +
1443A ARG* 1.3 57.2 + - - +
1445A LYS* 3.1 13.1 + - + +
1446A ILE* 2.8 36.3 + - + +
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Residues in contact with ARG1443 (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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1372A LEU* 4.5 18.1 - - + +
1376A GLU* 3.3 24.7 + - - -
1439A GLU* 3.0 60.1 + - - +
1440A ALA* 3.6 7.9 - - - +
1442A LEU* 1.3 73.6 - - - +
1444A GLU* 1.3 66.3 + - - +
1446A ILE* 3.2 7.8 + - + +
1447A ALA* 3.0 22.7 + - - +
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Residues in contact with GLU1444 (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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1440A ALA* 3.0 29.4 + - - +
1441A GLU* 3.8 11.9 - - - +
1443A ARG* 1.3 75.5 - - - +
1445A LYS* 1.3 63.5 + - - +
1447A ALA* 3.3 6.3 + - - +
1448A MET* 3.1 25.1 + - - +
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Residues in contact with LYS1445 (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 ASP* 6.0 1.1 - - + +
1368A ALA* 4.7 14.4 - - + -
1441A GLU 3.0 14.7 + - - +
1442A LEU* 3.3 17.9 - - + +
1444A GLU* 1.3 77.3 - - - +
1446A ILE* 1.3 62.7 + - + +
1448A MET* 3.2 6.8 + - - +
1449A LEU* 3.1 42.5 + - + +
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Residues in contact with ILE1446 (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* 4.3 20.4 - - + +
1368A ALA* 3.7 21.1 - - + +
1369A GLU* 3.7 39.7 - - + +
1372A LEU* 4.6 15.9 - - + -
1442A LEU 2.8 27.3 + - - +
1443A ARG* 3.2 6.7 + - - +
1445A LYS* 1.3 70.2 - - - +
1447A ALA* 1.3 61.0 + - - +
1449A LEU* 3.2 7.2 + - - +
1450A ALA* 2.8 31.8 + - + +
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Residues in contact with ALA1447 (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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1443A ARG 3.0 12.1 + - - +
1444A GLU* 3.4 11.9 - - - +
1446A ILE* 1.3 79.4 - - - +
1448A MET* 1.3 64.1 + - + +
1450A ALA* 3.6 5.5 - - - +
1451A ALA* 3.1 24.6 + - - +
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Residues in contact with MET1448 (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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1444A GLU 3.1 11.4 + - - +
1445A LYS* 3.2 8.7 + - - +
1447A ALA* 1.3 81.0 - - + +
1449A LEU* 1.3 64.4 + - + +
1451A ALA* 3.8 5.9 + - - +
1452A ILE* 3.4 26.8 + - + +
1458A THR* 5.3 0.3 - - - +
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Residues in contact with LEU1449 (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 SER* 4.0 25.8 - - - +
1364A ASP* 3.8 17.9 - - + +
1365A LYS* 3.4 44.4 - - + +
1368A ALA* 5.2 0.9 - - + -
1445A LYS* 3.1 36.6 + - + +
1446A ILE* 3.8 4.0 - - - +
1448A MET* 1.3 77.7 - - + +
1450A ALA* 1.3 68.6 + - - +
1452A ILE* 3.1 23.5 + - + +
1453A ILE* 3.2 16.6 + - - +
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Residues in contact with ALA1450 (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* 4.3 15.8 - - + +
1446A ILE* 2.8 24.3 + - + +
1447A ALA* 3.6 6.1 - - - +
1449A LEU* 1.3 72.2 - - - +
1451A ALA* 1.3 51.1 + - - +
1453A ILE* 2.7 30.2 + - - +
1454A GLY* 2.7 16.0 + - - -
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Residues in contact with ALA1451 (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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1447A ALA 3.1 14.1 + - - +
1448A MET* 3.8 6.5 - - - +
1450A ALA* 1.3 79.0 - - - +
1452A ILE* 1.3 56.6 + - - +
1454A GLY* 4.3 2.9 - - - +
1455A ASP* 2.8 36.5 + - + +
1458A THR* 3.9 14.6 - - + +
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Residues in contact with ILE1452 (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 ILE* 4.0 20.6 - - + -
1358A LEU* 3.8 5.4 - - + +
1361A SER* 3.8 24.5 - - - +
1448A MET* 3.4 20.1 + - + +
1449A LEU* 3.1 20.4 + - + +
1451A ALA* 1.3 77.9 - - - +
1453A ILE* 1.3 64.1 + - - +
1455A ASP 3.8 4.0 + - - +
1458A THR* 3.7 21.5 - - + -
1459A MET* 3.6 29.3 - - + +
1462A LEU* 4.0 25.1 - - + -
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Residues in contact with ILE1453 (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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1358A LEU* 3.5 29.6 - - + +
1361A SER* 4.0 13.9 - - - +
1362A ARG* 3.9 39.0 - - + +
1365A LYS* 3.6 30.5 - - - -
1449A LEU 3.7 13.9 - - - +
1450A ALA* 2.7 13.7 + - - +
1452A ILE* 1.3 74.6 - - - +
1454A GLY* 1.3 59.5 + - - +
1455A ASP 5.1 0.7 - - - -
1456A GLU* 5.3 4.2 - - - +
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Residues in contact with GLY1454 (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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1450A ALA 2.7 17.1 + - - -
1451A ALA* 3.7 2.7 - - - -
1453A ILE* 1.3 76.4 - - - +
1455A ASP* 1.3 58.4 + - - +
1456A GLU* 4.2 1.8 + - - -
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Residues in contact with ASP1455 (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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1451A ALA* 2.8 19.6 + - + +
1452A ILE 4.2 3.1 - - - -
1453A ILE 3.5 1.6 - - - -
1454A GLY* 1.3 75.0 - - - +
1456A GLU* 1.3 66.2 + - - +
1457A ARG* 3.6 13.8 + - - +
1458A THR* 2.6 46.3 + - - +
1459A MET* 3.0 12.0 + - - +
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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
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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