Contacts of the helix formed by residues 1509 - 1528 (chain C) in PDB entry 3ZQK
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 ILE1509 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1504C GLU* 3.5 63.7 - - + +
1505C GLY 4.6 0.9 - - - -
1506C SER* 3.1 11.8 + - - +
1507C ASP 3.8 0.2 - - - -
1508C LYS* 1.3 79.2 - - - +
1510C GLY* 1.3 65.9 + - - +
1513C ASP* 3.0 45.9 - - + +
1514C PHE* 3.7 11.9 - - + +
1517C SER* 5.3 0.4 - - - +
1570C TYR* 4.9 0.2 - - + -
1608C THR* 4.8 0.4 - - - -
1609C GLY* 3.9 13.5 - - - +
1610C ASN* 3.8 7.6 - - - +
1654C PHE* 3.9 21.3 - - + -
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Residues in contact with GLY1510 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1506C SER 3.1 8.5 + - - -
1507C ASP 3.3 8.5 + - - -
1509C ILE* 1.3 80.4 - - - +
1511C GLU* 1.3 65.5 + - - -
1512C ALA 3.4 2.6 + - - -
1514C PHE* 3.0 22.9 + - - +
1570C TYR* 3.3 16.8 - - - -
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Residues in contact with GLU1511 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1510C GLY* 1.3 70.7 - - - -
1512C ALA* 1.3 66.3 + - - +
1514C PHE* 3.3 0.5 + - - -
1515C ASN* 3.0 26.1 + - - +
1570C TYR* 3.7 39.3 + - + +
4676C NAG 3.3 53.3 + - + +
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Residues in contact with ALA1512 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1510C GLY 3.4 0.4 - - - -
1511C GLU* 1.3 77.4 - - - +
1513C ASP* 1.3 68.0 + - - +
1515C ASN* 3.3 11.8 + - - +
1516C ARG* 3.2 31.9 + - - +
4676C NAG 4.0 20.5 - - + +
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Residues in contact with ASP1513 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1508C LYS 4.8 1.6 - - - +
1509C ILE* 3.0 36.0 - - + +
1510C GLY 3.5 1.4 + - - -
1511C GLU 3.3 0.2 - - - -
1512C ALA* 1.3 81.6 - - - +
1514C PHE* 1.3 62.7 + - - +
1516C ARG* 3.1 11.9 + - - +
1517C SER* 3.1 17.5 + - - -
1654C PHE* 3.3 55.7 - - + +
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Residues in contact with PHE1514 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1503C LEU* 3.9 32.5 - - + -
1504C GLU 3.5 18.6 - - - -
1505C GLY* 3.8 6.3 - - - -
1509C ILE* 3.7 6.6 - - + +
1510C GLY 3.0 19.1 + - - +
1511C GLU 3.7 2.9 - - - +
1512C ALA 3.3 0.4 - - - -
1513C ASP* 1.3 77.0 - - - +
1515C ASN* 1.3 65.4 + - - +
1517C SER* 3.1 9.6 + - - -
1518C LYS* 3.0 41.3 + - + +
1541C GLN* 3.5 38.1 - - + -
1568C ILE* 4.1 11.4 - - + -
1570C TYR* 3.6 42.8 - + + -
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Residues in contact with ASN1515 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1511C GLU* 3.0 20.4 + - - +
1512C ALA* 3.3 6.0 + - - +
1514C PHE* 1.3 87.7 - - - +
1516C ARG* 1.3 53.1 + - - +
1518C LYS* 3.3 18.8 + - + +
1519C GLU* 2.8 38.8 + - + +
1568C ILE 5.4 0.2 - - - +
1570C TYR* 4.9 1.6 + - - +
4676C NAG 1.5 71.0 + - + +
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Residues in contact with ARG1516 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1512C ALA* 3.2 35.9 + - - +
1513C ASP* 3.1 18.2 + - - +
1515C ASN* 1.3 77.4 - - - +
1517C SER* 1.3 54.0 + - - +
1519C GLU* 3.1 27.2 + - - +
1520C PHE* 2.7 34.3 + - - +
1654C PHE* 3.4 32.1 - - + +
1655C GLU* 3.9 38.2 - - - +
1657C LEU* 4.1 2.9 - - + +
1658C PRO* 4.0 8.2 - - + +
1659C ARG* 4.9 3.8 - - - +
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Residues in contact with SER1517 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1503C LEU* 4.1 31.3 - - - +
1504C GLU 5.1 4.0 + - - -
1509C ILE* 5.3 0.5 - - - +
1513C ASP 3.1 5.0 + - - -
1514C PHE* 3.1 15.5 + - - -
1516C ARG* 1.3 75.8 - - - +
1518C LYS* 1.3 56.5 + - - +
1520C PHE* 3.3 7.2 + - - +
1521C MET* 3.0 27.5 + - - +
1607C VAL* 3.5 12.3 - - - +
1654C PHE* 3.4 25.1 - - - -
1657C LEU* 3.8 10.5 - - - +
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Residues in contact with LYS1518 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1503C LEU* 4.6 0.9 - - + -
1514C PHE* 3.0 47.0 + - + +
1515C ASN* 3.3 17.8 + - - +
1517C SER* 1.3 73.2 - - - +
1519C GLU* 1.3 65.6 + - - +
1521C MET* 3.2 23.2 + - + +
1522C GLU* 2.9 40.1 + - - +
1565C LEU 3.5 17.5 - - - +
1566C ARG 3.1 20.7 + - - -
1568C ILE* 2.6 29.8 + - + +
4676C NAG 3.3 16.0 + - - -
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Residues in contact with GLU1519 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1515C ASN* 2.8 24.7 + - + +
1516C ARG* 3.1 23.6 + - - +
1518C LYS* 1.3 71.6 - - - +
1520C PHE* 1.3 63.6 + - - +
1522C GLU* 3.4 14.1 + - - +
1523C GLU* 3.1 28.4 + - + +
1658C PRO* 3.3 27.5 - - + +
1659C ARG* 4.4 7.3 + - - -
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Residues in contact with PHE1520 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1501C PHE* 4.0 23.8 - + - -
1503C LEU* 5.3 0.7 - - + -
1516C ARG 2.7 16.7 + - - +
1517C SER 3.4 11.2 - - - +
1519C GLU* 1.3 74.0 - - - +
1521C MET* 1.3 66.2 + - + +
1523C GLU* 3.3 5.9 + - - +
1524C VAL* 3.2 39.6 + - + +
1605C TYR* 4.8 2.5 - + + -
1607C VAL* 4.0 20.6 - - + -
1628C ILE* 3.4 29.8 - - + -
1657C LEU* 3.8 18.6 - - + -
1658C PRO* 3.8 10.5 - - + +
1661C ALA* 3.6 34.8 - - + -
1662C PRO* 3.8 13.7 - - + -
1665C VAL* 4.3 7.4 - - + -
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Residues in contact with MET1521 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1501C PHE* 3.5 50.9 - - + -
1503C LEU* 3.4 26.5 - - + -
1517C SER 3.0 11.4 + - - +
1518C LYS* 3.2 20.2 + - + +
1520C PHE* 1.3 78.7 - - + +
1522C GLU* 1.3 65.3 + - - +
1524C VAL* 3.3 2.3 + - - +
1525C ILE* 3.0 38.2 + - + +
1539C VAL* 3.7 13.7 - - + -
1565C LEU* 3.1 35.7 - - + -
1568C ILE* 4.6 0.9 - - + -
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Residues in contact with GLU1522 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1518C LYS* 2.9 36.6 + - - +
1519C GLU* 3.7 13.2 - - - +
1521C MET* 1.3 78.0 - - + +
1523C GLU* 1.3 55.4 + - + +
1525C ILE* 3.8 2.5 - - - +
1526C GLN* 2.9 31.5 + - - +
1562C LEU* 4.1 25.2 - - + +
1565C LEU* 4.2 13.5 - - + +
1566C ARG* 3.9 38.0 + - + +
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Residues in contact with GLU1523 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1519C GLU* 3.1 23.2 + - + +
1520C PHE 3.3 7.2 + - - +
1522C GLU* 1.3 76.4 - - + +
1524C VAL* 1.3 62.7 + - - +
1526C GLN* 3.3 6.1 + - - +
1527C ARG* 3.2 37.9 + - - +
1658C PRO* 3.9 22.6 - - + +
1662C PRO* 3.7 16.7 - - + +
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Residues in contact with VAL1524 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1501C PHE* 3.9 17.5 - - + -
1520C PHE* 3.2 40.9 + - + +
1521C MET 3.8 5.8 - - - +
1523C GLU* 1.3 75.8 - - - +
1525C ILE* 1.3 59.0 + - - +
1527C ARG* 3.0 5.2 + - - +
1528C MET* 3.0 55.2 + - + +
1605C TYR* 4.9 0.7 - - + -
1662C PRO* 3.9 18.8 - - + +
1665C VAL* 4.2 16.4 - - + -
1666C LEU* 4.2 9.6 - - + +
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Residues in contact with ILE1525 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1501C PHE* 3.8 20.2 - - + -
1521C MET* 3.0 32.3 + - + +
1522C GLU* 3.8 3.1 - - - +
1524C VAL* 1.3 76.6 - - - +
1526C GLN* 1.3 57.4 + - - +
1527C ARG 3.3 0.7 + - - -
1528C MET* 3.3 15.0 + - - +
1530C VAL* 4.2 12.2 - - + +
1537C VAL* 3.8 33.4 - - + -
1558C LYS* 2.9 33.2 - - + -
1561C ILE* 3.9 23.1 - - + -
1562C LEU* 4.0 20.0 - - + -
1565C LEU* 4.9 5.2 - - + -
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Residues in contact with GLN1526 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1522C GLU 2.9 17.9 + - - +
1523C GLU* 3.7 7.4 - - - +
1524C VAL 3.2 0.2 - - - -
1525C ILE* 1.3 76.7 - - - +
1527C ARG* 1.3 63.0 + - + +
1558C LYS* 3.0 37.0 + - - +
1562C LEU* 3.2 27.5 - - + +
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Residues in contact with ARG1527 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1523C GLU* 3.2 23.3 + - - +
1524C VAL 3.0 2.8 + - - +
1526C GLN* 1.3 80.6 - - + +
1528C MET* 1.3 63.0 + - - +
1529C ASP 4.0 0.2 + - - -
1558C LYS* 4.6 0.7 - - - -
1662C PRO* 3.9 10.3 - - - +
1663C ASP* 2.9 44.2 + - - +
1666C LEU* 3.5 36.2 - - + +
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Residues in contact with MET1528 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1497C LEU* 5.0 3.4 - - + -
1499C VAL* 4.4 17.9 - - + -
1501C PHE* 5.3 2.2 - - - -
1524C VAL* 3.0 35.7 + - + +
1525C ILE* 3.3 4.3 + - - +
1527C ARG* 1.3 79.5 - - - +
1529C ASP* 1.3 58.9 + - - +
1530C VAL* 2.8 25.7 + - + -
1535C ILE* 4.2 24.2 - - + -
1537C VAL* 5.7 1.1 - - - -
1558C LYS* 2.9 23.4 + - - -
1603C LEU* 5.0 0.4 - - + -
1605C TYR* 4.0 19.3 - - + +
1666C LEU* 3.7 14.4 - - + -
1669C CYS* 3.8 26.9 - - - -
1670C CYS* 4.1 7.4 - - - -
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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