Contacts of the helix formed by residues 1455 - 1475 (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 ASP1455 (chain A).
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Specific contacts
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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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Residues in contact with GLU1456 (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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1354A ARG* 2.3 48.5 + - - -
1358A LEU* 6.0 0.4 - - - -
1452A ILE 5.4 0.2 - - - -
1453A ILE 5.3 4.0 - - - +
1454A GLY 4.2 0.9 + - - -
1455A ASP* 1.3 73.7 + - - +
1457A ARG* 1.3 62.6 + - - +
1459A MET* 3.3 9.6 + - + +
1460A TYR* 2.9 51.9 + - + -
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Residues in contact with ARG1457 (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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1455A ASP* 3.2 14.2 + - - +
1456A GLU* 1.3 78.3 - - - +
1458A THR* 1.3 63.6 + - - +
1460A TYR* 3.4 5.9 + - - +
1461A ASN* 2.9 44.8 + - - +
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Residues in contact with THR1458 (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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1448A MET 5.3 0.2 - - - +
1451A ALA* 3.9 15.5 + - + +
1452A ILE* 3.7 32.3 - - + +
1455A ASP* 2.6 33.0 + - - +
1457A ARG* 1.3 75.0 - - - +
1459A MET* 1.3 67.0 + - - +
1461A ASN* 3.1 19.2 + - - +
1462A LEU* 3.1 11.1 + - - +
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Residues in contact with MET1459 (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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1354A ARG* 3.4 41.7 - - + +
1357A ILE* 4.0 27.0 - - + +
1358A LEU* 4.5 12.6 - - + -
1452A ILE* 3.6 31.4 - - + +
1455A ASP 3.0 3.8 + - - +
1456A GLU* 3.5 15.9 - - + +
1458A THR* 1.3 78.1 - - - +
1460A TYR* 1.3 96.1 + - + +
1462A LEU* 2.9 22.8 + - - +
1463A MET* 3.1 11.6 + - - +
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Residues in contact with TYR1460 (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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1194A ILE* 3.7 30.9 - - + +
1350A ILE* 3.7 27.8 - - + +
1351A ALA* 5.8 1.0 - - - -
1354A ARG* 3.8 17.6 + - + +
1456A GLU* 2.9 46.2 + - + +
1457A ARG* 3.9 5.4 - - - +
1459A MET* 1.3 92.1 - - + +
1461A ASN* 1.3 66.4 + - - +
1463A MET* 3.4 18.0 + - - +
1464A LYS* 3.0 28.7 + - + +
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Residues in contact with ASN1461 (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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1457A ARG* 2.9 40.5 + - - +
1458A THR* 3.1 11.0 + - - +
1460A TYR* 1.3 77.7 - - - +
1462A LEU* 1.3 57.8 + - - +
1464A LYS* 2.9 29.2 + - - +
1465A LYS* 2.9 29.0 + - - +
1468A ARG* 5.4 0.2 + - - -
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Residues in contact with LEU1462 (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* 4.3 16.4 - - + -
1360A ARG* 3.8 24.5 - - - +
1452A ILE* 4.0 27.6 - - + -
1458A THR* 3.1 6.9 + - + +
1459A MET* 2.9 13.1 + - - +
1461A ASN* 1.3 74.3 - - - +
1463A MET* 1.3 66.5 - - - +
1465A LYS* 3.1 23.9 + - - +
1466A GLU* 2.9 44.5 + - + +
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Residues in contact with MET1463 (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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1194A ILE* 3.4 18.4 - - + -
1349A TYR* 5.2 0.4 - - + -
1350A ILE* 3.2 59.9 - - + +
1353A ARG* 3.6 29.2 - - + +
1354A ARG* 4.3 6.1 - - - -
1357A ILE* 3.6 19.9 - - + +
1459A MET* 3.1 7.8 + - - +
1460A TYR* 3.6 24.5 - - - +
1461A ASN 3.2 0.2 - - - -
1462A LEU* 1.3 80.3 - - - +
1464A LYS* 1.3 62.1 + - - +
1466A GLU* 3.3 3.4 + - - +
1467A LEU* 3.0 33.9 + - + +
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Residues in contact with LYS1464 (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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1191A VAL* 3.6 21.1 - - + -
1194A ILE* 3.3 40.5 - - + +
1195A ASP* 3.2 33.6 + - - +
1460A TYR* 3.0 11.7 + - - +
1461A ASN* 2.9 35.6 + - - +
1463A MET* 1.3 76.7 - - - +
1465A LYS* 1.3 64.4 + - - +
1467A LEU* 3.3 6.6 + - - +
1468A ARG* 2.9 54.9 + - - +
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Residues in contact with LYS1465 (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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1461A ASN 2.9 12.7 + - - +
1462A LEU* 3.1 26.3 + - + +
1464A LYS* 1.3 75.9 - - - +
1466A GLU* 1.3 66.7 + - + +
1468A ARG* 3.3 12.9 + - - +
1469A GLU* 3.1 45.0 + - + +
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Residues in contact with GLU1466 (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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1132A GLN* 5.2 4.0 - - - +
1158A ALA 5.7 0.7 - - - -
1353A ARG* 3.3 20.0 + - - +
1357A ILE* 4.2 6.1 - - - +
1360A ARG* 2.8 36.6 + - - -
1462A LEU* 2.9 39.0 + - + +
1463A MET* 4.0 3.4 - - - +
1465A LYS* 1.3 78.0 - - + +
1467A LEU* 1.3 64.9 + - - +
1469A GLU* 3.2 18.8 + - - +
1470A VAL* 3.0 27.1 + - + +
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Residues in contact with LEU1467 (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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1158A ALA 3.9 11.2 - - - +
1160A PRO* 4.6 1.6 - - + -
1187A ILE* 3.5 45.2 - - + +
1190A ALA* 4.5 7.9 - - + -
1191A VAL* 4.1 10.1 - - + -
1194A ILE* 3.8 26.9 - - + -
1349A TYR* 3.7 37.9 - - + +
1353A ARG* 5.5 3.8 - - + +
1463A MET* 3.0 29.3 + - + +
1464A LYS 3.6 4.5 - - - +
1466A GLU* 1.3 77.2 - - - +
1468A ARG* 1.3 61.4 + - - +
1470A VAL* 3.3 3.6 + - - +
1471A LYS 3.0 18.5 + - - -
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Residues in contact with ARG1468 (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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1187A ILE* 4.9 1.6 - - + -
1191A VAL* 3.7 31.8 - - + +
1195A ASP* 4.8 2.4 + - - -
1461A ASN 5.4 0.2 + - - -
1464A LYS* 2.9 56.4 + - - +
1465A LYS* 3.7 10.4 - - - +
1467A LEU* 1.3 74.5 - - - +
1469A GLU* 1.3 60.2 + - - +
1471A LYS* 3.2 11.6 + - + +
1472A LYS* 2.7 31.3 + - - +
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Residues in contact with GLU1469 (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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1465A LYS* 3.1 50.3 + - + +
1466A GLU* 3.2 18.1 + - - +
1468A ARG* 1.3 74.6 - - - +
1470A VAL* 1.3 63.2 + - + +
1472A LYS* 3.1 9.2 + - - +
1473A LYS* 2.9 25.7 + - - +
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Residues in contact with VAL1470 (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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1129A TYR* 3.8 31.2 - - + -
1158A ALA* 3.8 19.5 - - + +
1159A PHE* 4.0 19.3 - - + -
1183A LEU* 4.2 7.0 - - + -
1187A ILE* 3.8 16.8 - - + -
1466A GLU* 3.0 17.2 + - + +
1467A LEU 3.6 7.6 - - - +
1469A GLU* 1.3 75.6 - - + +
1471A LYS* 1.3 58.5 + - - +
1473A LYS* 3.1 2.2 + - - -
1474A PHE* 2.9 48.3 + - + +
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Residues in contact with LYS1471 (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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1183A LEU* 3.9 12.1 - - + -
1184A ALA* 3.9 29.4 - - + +
1187A ILE* 4.0 15.9 - - + -
1188A ASP* 2.9 37.7 + - - +
1467A LEU 3.0 13.0 + - - +
1468A ARG* 3.5 13.5 - - + +
1470A VAL* 1.3 77.7 - - - +
1472A LYS* 1.3 64.6 + - - +
1475A ALA* 2.9 32.5 + - + +
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Residues in contact with LYS1472 (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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1468A ARG 2.7 21.0 + - - +
1469A GLU* 3.6 8.3 - - - +
1471A LYS* 1.3 75.8 - - - +
1473A LYS* 1.3 60.6 + - - +
1475A ALA* 4.5 3.7 + - - +
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Residues in contact with LYS1473 (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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1125A GLU* 2.8 35.8 + - - -
1129A TYR* 3.5 29.3 + - + +
1469A GLU 2.9 17.2 + - - +
1470A VAL* 3.7 4.0 - - - +
1472A LYS* 1.3 80.4 - - - +
1474A PHE* 1.3 81.6 + - + +
1475A ALA 3.7 1.0 - - - +
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Residues in contact with PHE1474 (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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1096A GLU* 4.3 12.5 - - - +
1125A GLU* 4.2 12.8 - - + -
1126A ILE* 3.6 52.0 - - + -
1129A TYR* 3.4 48.2 - + - -
1183A LEU* 4.5 12.2 - - + +
1470A VAL* 2.9 32.3 + - + +
1471A LYS 3.9 0.2 - - - -
1473A LYS* 1.3 104.4 - - + +
1475A ALA* 1.3 66.2 + - - +
1476A THR* 3.4 12.1 + - - +
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Residues in contact with ALA1475 (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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1183A LEU* 4.9 5.6 - - - -
1184A ALA* 4.1 25.1 - - + +
1471A LYS* 2.9 24.0 + - + +
1472A LYS* 4.5 3.7 + - - +
1473A LYS 3.7 2.3 - - - +
1474A PHE* 1.3 78.2 - - - +
1476A THR* 1.3 67.5 + - - +
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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
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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