Contacts of the helix formed by residues 1445 - 1460 (chain E) in PDB entry 4C2B
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 GLU1445 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90B GLN* 2.8 36.0 + - - +
1440E LEU* 3.4 10.8 - - + +
1441E SER* 2.7 39.6 + - - +
1442E SER* 3.6 18.8 - - - +
1443E VAL 3.1 1.2 - - - -
1444E ASP* 1.3 78.8 - - + +
1446E LEU* 1.3 57.9 + - - +
1447E GLU 3.3 0.9 - - - -
1448E GLN* 3.1 22.8 + - - +
1449E GLN* 2.8 35.6 + - + +
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Residues in contact with LEU1446 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1295E VAL* 4.7 2.2 - - + +
1296E LEU* 3.7 30.1 - - + -
1299E PHE* 3.3 47.2 - - + -
1384E LEU* 5.2 0.4 - - + -
1414E VAL* 4.2 20.0 - - + -
1416E ILE* 4.1 9.6 - - + -
1440E LEU* 3.6 21.0 - - + +
1442E SER 4.9 0.4 - - - +
1443E VAL* 3.4 32.5 - - + +
1444E ASP 3.3 0.2 - - - -
1445E GLU* 1.3 79.2 - - - +
1447E GLU* 1.3 57.3 + - - +
1449E GLN* 3.8 1.2 - - - -
1450E ARG* 3.0 31.4 + - - +
1453E ILE* 5.1 3.1 - - + -
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Residues in contact with GLU1447 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1295E VAL* 6.1 4.5 - - + +
1298E ALA* 5.1 1.2 - - - +
1299E PHE* 4.6 10.8 + - + +
1302E ASP* 3.2 26.5 - - - +
1443E VAL 4.6 0.4 + - - -
1444E ASP* 3.9 9.5 + - - +
1445E GLU 3.3 0.4 - - - -
1446E LEU* 1.3 79.3 - - - +
1448E GLN* 1.3 59.8 - - + +
1450E ARG* 2.5 61.2 + - - +
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Residues in contact with GLN1448 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90B GLN* 4.8 4.0 - - - +
1444E ASP* 3.5 22.5 + - - +
1445E GLU* 3.1 30.9 + - - +
1447E GLU* 1.3 83.2 - - + +
1449E GLN* 1.3 70.0 + - + +
1450E ARG 3.4 0.4 + - - -
1451E ASP* 4.6 7.6 + - - +
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Residues in contact with GLN1449 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90B GLN* 2.7 37.0 + - - +
111B ARG* 4.6 9.2 + - - +
113B THR* 5.1 8.9 - - - +
135B GLU* 4.9 0.9 - - - +
1438E PHE* 5.6 0.2 - - + -
1440E LEU* 3.7 28.0 - - + -
1445E GLU* 2.8 19.4 + - + +
1446E LEU 3.8 1.3 - - - +
1448E GLN* 1.3 84.8 + - + +
1450E ARG* 1.3 63.7 + - - +
1451E ASP 3.2 2.9 - - - -
1452E GLU* 2.9 40.2 + - - +
1453E ILE* 3.1 25.4 + - + +
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Residues in contact with ARG1450 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1299E PHE* 3.6 21.5 - - + -
1302E ASP* 4.8 14.6 - - - +
1303E MET* 4.6 6.0 - - - +
1306E ARG* 3.0 48.8 - - - +
1446E LEU 3.0 14.0 + - - +
1447E GLU* 2.5 55.8 + - - +
1448E GLN 3.4 0.2 - - - -
1449E GLN* 1.3 78.8 - - - +
1451E ASP* 1.3 74.3 + - + +
1453E ILE* 4.0 4.3 - - - +
1454E VAL* 3.2 29.6 + - - +
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Residues in contact with ASP1451 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159B ARG* 5.7 0.4 + - - -
1268E HIS* 4.4 21.9 + - - -
1306E ARG* 5.5 3.7 + - - +
1448E GLN 4.6 6.7 + - - +
1449E GLN 3.2 0.8 - - - -
1450E ARG* 1.3 92.8 + - + +
1452E GLU* 1.3 57.9 + - - +
1454E VAL* 3.2 11.8 - - - +
1455E SER* 3.0 20.8 + - - -
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Residues in contact with GLU1452 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B ARG* 3.5 26.7 + - - +
135B GLU* 3.0 43.2 - - - +
159B ARG* 4.5 9.3 + - - +
1438E PHE* 4.1 15.8 - - + -
1449E GLN* 2.9 34.2 + - - +
1451E ASP* 1.3 79.6 - - - +
1453E ILE* 1.3 65.3 + - - +
1454E VAL 3.3 0.2 - - - -
1455E SER* 3.2 15.3 + - - -
1456E TYR* 3.3 13.2 + - + +
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Residues in contact with ILE1453 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1299E PHE* 4.0 22.9 - - + -
1303E MET* 3.7 20.2 - - + -
1382E LEU* 4.7 12.8 - - + -
1412E ILE* 5.6 0.2 - - + -
1414E VAL* 5.1 7.6 - - + -
1438E PHE* 3.8 52.5 - - + -
1440E LEU* 5.6 1.1 - - + -
1446E LEU* 5.1 7.6 - - + -
1449E GLN* 3.1 25.7 + - + +
1450E ARG 4.2 2.0 - - - +
1451E ASP 3.6 0.2 - - - -
1452E GLU* 1.3 76.8 - - - +
1454E VAL* 1.3 61.9 + - - +
1456E TYR* 3.2 5.9 + - - +
1457E LEU* 3.1 28.6 + - + +
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Residues in contact with VAL1454 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1268E HIS* 5.3 10.3 - - + +
1270E PHE* 6.4 0.4 - - + -
1271E CYS* 5.6 2.0 - - + -
1303E MET* 3.6 34.5 - - + +
1306E ARG* 5.5 18.2 - - + -
1307E LEU* 5.4 11.2 - - + -
1450E ARG 3.2 17.7 + - - +
1451E ASP* 3.2 20.2 - - - +
1453E ILE* 1.3 76.8 - - - +
1455E SER* 1.3 61.5 + - - +
1457E LEU* 2.8 29.1 + - + +
1458E CYS* 2.9 28.4 + - - -
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Residues in contact with SER1455 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159B ARG* 4.7 17.0 + - - -
1268E HIS* 5.2 5.4 - - - -
1270E PHE* 3.7 29.3 - - - -
1451E ASP* 3.0 18.2 + - - -
1452E GLU* 3.2 11.5 + - - -
1454E VAL* 1.3 79.7 - - - +
1456E TYR* 1.3 59.0 + - - +
1458E CYS 4.2 0.4 - - - -
1459E ASP* 3.6 19.6 + - - +
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Residues in contact with TYR1456 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1412E ILE* 3.6 33.2 - - + -
1434E GLU* 2.2 33.8 + - - -
1436E LYS* 2.9 48.5 + - + -
1438E PHE* 4.1 19.5 - + + -
1452E GLU* 3.3 9.3 + - + +
1453E ILE 3.2 8.0 + - - +
1454E VAL 3.0 0.6 - - - -
1455E SER* 1.3 76.2 - - - +
1457E LEU* 1.3 65.4 + - - +
1459E ASP* 3.7 10.6 + - - +
1460E LEU* 3.3 46.2 + - + +
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Residues in contact with LEU1457 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1271E CYS* 5.1 0.2 - - - -
1276E LEU* 4.7 10.7 - - + +
1278E LEU* 4.7 20.6 - - + -
1303E MET* 3.7 29.4 - - + -
1307E LEU* 5.7 4.5 - - + -
1380E ILE* 3.8 33.5 - - + +
1382E LEU* 5.1 7.6 - - + -
1412E ILE* 3.7 28.7 - - + -
1453E ILE* 3.1 22.1 + - + +
1454E VAL* 2.8 13.5 + - + +
1456E TYR* 1.3 76.5 - - - +
1458E CYS* 1.3 65.7 + - - +
1460E LEU* 3.3 13.2 + - - +
1461E ALA* 3.5 12.1 + - - +
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Residues in contact with CYS1458 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1270E PHE* 3.5 27.4 - - + -
1271E CYS* 2.0 52.3 - - + -
1274E ARG* 3.1 23.9 + - - +
1276E LEU* 6.2 0.2 - - - -
1454E VAL* 2.9 34.2 + - - -
1457E LEU* 1.3 74.7 - - - +
1459E ASP* 1.3 60.2 + - - +
1461E ALA* 3.0 29.7 + - - +
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Residues in contact with ASP1459 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1270E PHE* 4.7 5.3 - - + -
1274E ARG* 4.8 7.3 + - - +
1455E SER 3.6 17.9 + - - +
1456E TYR* 3.7 14.4 + - + +
1457E LEU 3.3 0.2 - - - -
1458E CYS* 1.3 79.6 - - - +
1460E LEU* 1.3 67.5 + - + +
1461E ALA 3.3 3.7 + - - +
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Residues in contact with LEU1460 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1378E SER* 2.8 26.7 + - - -
1380E ILE* 4.4 13.2 - - + -
1410E ILE* 3.7 33.9 - - + +
1412E ILE* 4.9 0.7 - - + -
1434E GLU* 4.2 17.3 - - + +
1456E TYR* 3.3 55.2 - - + +
1457E LEU 3.3 8.1 + - - +
1458E CYS 3.1 0.6 - - - -
1459E ASP* 1.3 87.2 - - - +
1461E ALA* 1.3 52.0 + - - +
1462E PRO* 4.1 1.1 - - - +
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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
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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