Contacts of the helix formed by residues 1656 - 1670 (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 THR1656 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1651C ILE* 2.9 26.6 - - - +
1652C GLN* 4.0 14.1 + - + +
1653C ASP* 3.1 28.5 + - - +
1655C GLU* 1.3 90.0 - - - +
1657C LEU* 1.3 65.7 + - - +
1658C PRO 3.4 0.2 - - - -
1659C ARG* 2.8 13.7 + - - +
1660C GLU* 2.9 36.9 + - - +
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Residues in contact with LEU1657 (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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1516C ARG 4.1 1.1 - - - +
1517C SER* 3.8 39.3 - - - +
1520C PHE* 3.8 17.6 - - + -
1607C VAL* 3.9 10.5 - - + -
1628C ILE* 3.7 29.6 - - + -
1630C VAL* 4.1 7.2 - - + -
1651C ILE* 3.9 14.1 - - + -
1653C ASP 3.3 2.5 + - - +
1654C PHE* 3.3 25.3 + - + +
1656C THR* 1.3 79.1 + - - +
1658C PRO* 1.3 67.1 - - + +
1661C ALA* 3.1 47.2 + - + +
1662C PRO* 3.3 1.9 - - - +
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Residues in contact with PRO1658 (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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1516C ARG* 4.0 8.7 - - + +
1519C GLU* 3.3 46.4 - - + +
1520C PHE* 3.8 17.3 - - - +
1523C GLU* 3.9 14.8 - - + +
1654C PHE 3.1 19.1 - - - +
1655C GLU 3.7 9.6 - - - +
1657C LEU* 1.3 90.3 - - + +
1659C ARG* 1.3 65.7 + - + +
1662C PRO* 3.5 17.8 - - + +
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Residues in contact with ARG1659 (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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1516C ARG* 4.9 4.6 - - - +
1519C GLU* 4.4 6.7 + - - -
1655C GLU* 2.8 63.9 + - - +
1656C THR* 2.8 7.2 + - - +
1658C PRO* 1.3 95.5 - - + +
1660C GLU* 1.3 79.2 + - - +
1662C PRO* 4.4 2.5 - - - +
1663C ASP* 5.0 8.7 - - - +
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Residues in contact with GLU1660 (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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1651C ILE* 4.9 8.5 - - + -
1656C THR* 2.9 43.7 + - - +
1659C ARG* 1.3 95.1 - - - +
1661C ALA* 1.3 65.2 + - - +
1662C PRO* 3.5 1.5 - - - -
1663C ASP* 3.7 10.6 + - - +
1664C LEU* 3.4 27.3 + - + +
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Residues in contact with ALA1661 (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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1520C PHE* 3.6 19.1 - - + -
1628C ILE* 4.9 4.0 - - + -
1649C ILE* 4.9 6.2 - - + +
1651C ILE* 4.0 19.1 - - + +
1657C LEU* 3.1 32.9 + - + +
1660C GLU* 1.3 76.0 - - - +
1662C PRO* 1.3 66.8 - - - +
1664C LEU* 3.0 8.0 + - - +
1665C VAL* 2.9 23.4 + - + +
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Residues in contact with PRO1662 (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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1520C PHE* 3.8 12.1 - - + +
1523C GLU* 3.7 23.8 - - + +
1524C VAL* 3.9 22.2 - - + +
1527C ARG* 3.9 17.3 - - - +
1657C LEU 3.3 13.0 - - - +
1658C PRO* 3.5 20.9 - - + +
1659C ARG 4.4 1.3 - - - +
1660C GLU 3.7 3.8 - - - +
1661C ALA* 1.3 89.8 - - + +
1663C ASP* 1.3 61.8 + - - +
1665C VAL* 3.3 0.9 + - + +
1666C LEU* 2.9 31.3 + - + +
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Residues in contact with ASP1663 (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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1527C ARG* 2.9 34.2 + - - +
1659C ARG 5.0 8.1 + - - +
1660C GLU* 3.7 11.5 + - - +
1661C ALA 3.3 0.2 - - - -
1662C PRO* 1.3 78.1 - - - +
1664C LEU* 1.3 59.1 + - + +
1666C LEU* 3.9 0.9 - - - +
1667C GLN* 2.9 49.6 + - - +
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Residues in contact with LEU1664 (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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1649C ILE* 3.8 35.9 - - + -
1650C LEU 6.0 0.4 - - - +
1651C ILE* 4.5 7.2 - - + -
1660C GLU* 3.4 21.5 + - + +
1661C ALA* 3.0 9.4 + - - +
1663C ASP* 1.3 78.4 - - + +
1665C VAL* 1.3 65.3 + - - +
1667C GLN* 3.5 22.9 + - - +
1668C ARG* 3.5 26.5 + - - +
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Residues in contact with VAL1665 (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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1520C PHE* 4.3 5.2 - - + -
1524C VAL* 4.2 15.3 - - + -
1605C TYR* 3.2 54.7 + - + +
1626C VAL* 4.9 0.2 - - + -
1628C ILE* 4.2 11.9 - - + -
1649C ILE* 3.7 22.7 - - + -
1661C ALA 2.9 14.7 + - - +
1662C PRO* 3.8 4.5 - - + +
1664C LEU* 1.3 77.9 - - - +
1666C LEU* 1.3 73.9 + - + +
1668C ARG* 3.3 15.8 + - - +
1669C CYS* 3.4 13.5 + - - +
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Residues in contact with LEU1666 (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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1524C VAL* 4.2 14.6 - - + -
1527C ARG* 3.5 53.8 - - + +
1528C MET* 3.7 34.5 - - + -
1662C PRO* 2.9 23.4 + - + +
1663C ASP 4.2 1.6 - - - +
1665C VAL* 1.3 77.5 - - + +
1667C GLN* 1.3 60.6 + - - +
1669C CYS* 4.1 14.4 - - - -
1670C CYS* 2.9 41.4 + - + +
1671C SER* 3.5 1.2 + - - -
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Residues in contact with GLN1667 (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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1663C ASP* 2.9 41.9 + - - +
1664C LEU* 3.7 24.3 - - - +
1665C VAL 3.3 0.4 - - - -
1666C LEU* 1.3 76.9 - - - +
1668C ARG* 1.3 62.3 + - + +
1669C CYS 3.7 0.2 + - - -
1671C SER* 2.9 30.2 + - - +
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Residues in contact with ARG1668 (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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1624C GLN* 5.9 4.1 + - - +
1626C VAL* 4.1 19.4 - - + +
1646C ASN* 4.5 7.7 - - - +
1647C ALA* 2.9 47.9 + - - +
1648C PRO 3.9 5.3 + - - -
1649C ILE* 3.6 30.3 - - - +
1664C LEU* 3.6 12.1 + - - +
1665C VAL* 3.3 9.5 + - - +
1666C LEU 3.1 0.8 - - - -
1667C GLN* 1.3 83.9 - - + +
1669C CYS* 1.3 57.3 + - + +
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Residues in contact with CYS1669 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1497C LEU* 5.7 2.2 - - + -
1528C MET* 3.8 18.8 - - - -
1603C LEU* 4.6 11.7 - - + -
1605C TYR* 4.0 11.0 - - - +
1665C VAL 3.4 14.3 + - - +
1666C LEU* 4.1 5.8 - - - -
1668C ARG* 1.3 82.0 - - + +
1670C CYS* 1.3 103.5 + - - +
1671C SER 3.9 1.5 - - - +
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Residues in contact with CYS1670 (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* 5.6 3.8 - - - -
1528C MET* 4.1 17.5 - - + -
1535C ILE* 5.2 9.2 - - - -
1666C LEU* 2.9 23.6 + - + +
1669C CYS* 1.3 124.4 - - - +
1671C SER* 1.3 59.6 + - - +
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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