Contacts of the helix formed by residues 1656 - 1671 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1651A ILE* 4.0 10.5 - - + -
1652A GLN* 4.3 16.7 + - + +
1653A ASP* 2.8 30.4 + - - -
1654A PHE 3.1 0.4 - - - -
1655A GLU* 1.3 80.5 - - - +
1657A LEU* 1.3 66.4 + - - +
1659A ARG* 3.0 7.5 + - + -
1660A GLU* 2.9 61.7 + - + +
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Residues in contact with LEU1657 (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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1516A ARG 4.3 0.7 - - - +
1517A SER* 3.7 39.3 - - - +
1520A PHE* 3.9 17.2 - - + -
1607A VAL* 4.0 11.9 - - + -
1628A ILE* 3.8 22.9 - - + -
1630A VAL* 4.2 5.8 - - + -
1651A ILE* 3.6 13.2 - - + +
1653A ASP 3.2 11.0 + - - +
1654A PHE* 3.5 21.8 - - + +
1656A THR* 1.3 74.9 - - - +
1658A PRO* 1.3 65.4 - - + +
1661A ALA* 3.0 57.2 + - + +
1662A PRO* 3.4 1.2 - - - +
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Residues in contact with PRO1658 (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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1516A ARG* 3.9 30.1 - - + +
1519A GLU* 4.0 15.9 - - + -
1520A PHE* 3.9 20.6 - - + +
1523A GLU* 3.2 23.6 - - - +
1654A PHE 3.1 20.6 - - - +
1655A GLU* 3.7 9.0 - - - +
1657A LEU* 1.3 90.5 - - + +
1659A ARG* 1.3 61.2 + - + +
1662A PRO* 3.4 11.7 - - + +
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Residues in contact with ARG1659 (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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1523A GLU* 6.0 1.7 + - - -
1655A GLU 4.1 13.7 - - - +
1656A THR* 3.0 10.1 + - + +
1658A PRO* 1.3 83.3 - - + +
1660A GLU* 1.3 64.8 + - + +
1662A PRO* 4.4 1.8 - - - -
1663A ASP* 5.5 3.5 - - - +
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Residues in contact with GLU1660 (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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1651A ILE* 4.4 15.0 - - + +
1652A GLN 5.6 0.3 + - - -
1656A THR* 2.9 38.5 + - + +
1659A ARG* 1.3 84.7 - - + +
1661A ALA* 1.3 65.0 + - - +
1662A PRO* 3.4 2.8 - - - -
1663A ASP* 3.6 9.9 + - - +
1664A LEU* 3.5 23.1 + - + +
2675A GOL 4.1 18.1 + - - -
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Residues in contact with ALA1661 (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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1520A PHE* 3.6 14.8 - - + -
1628A ILE* 4.8 4.5 - - + -
1649A ILE* 5.3 1.3 - - + -
1651A ILE* 4.1 12.6 - - + -
1657A LEU* 3.0 38.7 + - + +
1660A GLU* 1.3 77.6 - - - +
1662A PRO* 1.3 69.1 - - - +
1664A LEU* 3.1 12.4 + - + +
1665A VAL* 3.0 26.6 + - + +
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Residues in contact with PRO1662 (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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1520A PHE* 3.7 22.0 - - + +
1523A GLU* 4.0 16.6 - - + +
1524A VAL* 3.7 20.0 - - + +
1527A ARG* 3.8 20.4 - - - +
1657A LEU 3.4 5.8 - - - +
1658A PRO* 3.4 26.5 - - + +
1659A ARG 4.4 1.1 - - - -
1660A GLU 3.5 3.1 - - - +
1661A ALA* 1.3 93.8 - - + +
1663A ASP* 1.3 62.7 + - - +
1665A VAL* 3.3 2.4 + - - +
1666A LEU* 3.1 27.3 + - + +
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Residues in contact with ASP1663 (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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1527A ARG* 2.9 34.8 + - - +
1659A ARG 5.5 4.1 - - - +
1660A GLU* 3.6 9.9 + - - +
1661A ALA 3.3 0.4 - - - -
1662A PRO* 1.3 78.0 - - - +
1664A LEU* 1.3 58.7 + - + +
1666A LEU* 3.3 6.4 + - - +
1667A GLN* 2.9 47.3 + - - +
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Residues in contact with LEU1664 (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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1649A ILE* 3.8 39.0 - - + -
1651A ILE* 4.0 12.6 - - + -
1660A GLU* 3.5 21.0 + - + +
1661A ALA* 3.1 7.5 + - - +
1663A ASP* 1.3 77.1 - - + +
1665A VAL* 1.3 63.4 + - - +
1667A GLN* 3.3 26.9 + - - +
1668A ARG* 3.2 24.5 + - - +
2675A GOL 3.9 35.4 - - - +
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Residues in contact with VAL1665 (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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1501A PHE* 4.9 0.7 - - + -
1520A PHE* 3.8 23.6 - - + -
1524A VAL* 4.0 25.6 - - + -
1528A MET* 5.8 0.2 - - - -
1605A TYR* 3.8 39.5 - - + -
1628A ILE* 4.0 15.0 - - + -
1649A ILE* 4.6 7.0 - - + -
1661A ALA* 3.0 16.8 + - + +
1662A PRO 3.8 4.0 - - - +
1664A LEU* 1.3 77.7 - - - +
1666A LEU* 1.3 57.5 + - - +
1668A ARG* 3.1 7.8 + - - +
1669A CYS* 2.9 30.3 + - - +
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Residues in contact with LEU1666 (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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1524A VAL* 4.7 8.3 - - + +
1527A ARG* 3.4 58.6 - - + +
1528A MET* 3.9 29.6 - - + -
1662A PRO* 3.1 20.3 + - + +
1663A ASP* 3.7 5.4 - - - +
1665A VAL* 1.3 77.0 - - - +
1667A GLN* 1.3 57.7 + - - +
1669A CYS* 3.8 9.4 - - - -
1670A CYS* 3.0 22.4 + - - -
1672A GLY* 2.9 23.0 + - - -
1673A GLU 3.8 18.8 - - - +
1674A GLY* 4.0 7.9 - - - +
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Residues in contact with GLN1667 (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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1663A ASP* 2.9 43.2 + - - +
1664A LEU* 3.5 26.6 - - - +
1666A LEU* 1.3 77.4 - - - +
1668A ARG* 1.3 65.3 + - + +
1671A SER* 3.7 13.9 + - - -
1672A GLY* 3.6 17.0 - - - +
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Residues in contact with ARG1668 (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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1605A TYR* 4.1 12.6 - - + +
1626A VAL* 3.7 34.1 - - + +
1646A ASN* 3.9 25.4 - - - +
1647A ALA* 3.1 31.7 + - - +
1648A PRO 5.0 0.6 + - - -
1649A ILE* 3.8 31.7 - - - +
1664A LEU* 3.2 7.9 + - - +
1665A VAL 3.1 8.0 + - - +
1667A GLN* 1.3 84.7 - - + +
1669A CYS* 1.3 62.7 + - - +
1671A SER 4.8 0.5 + - - -
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Residues in contact with CYS1669 (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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1495A MET* 5.0 1.0 - - - +
1497A LEU* 3.8 17.8 - - + +
1499A VAL* 5.5 2.2 - - + -
1528A MET* 4.5 12.3 - - - -
1603A LEU* 4.2 15.7 - - + +
1605A TYR* 3.1 24.9 - - + +
1665A VAL* 2.9 20.2 + - - +
1666A LEU* 3.8 13.2 - - - -
1668A ARG* 1.3 77.2 - - - +
1670A CYS* 1.3 104.7 + - - +
1671A SER 3.8 0.8 + - - -
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Residues in contact with CYS1670 (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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1495A MET* 3.4 32.5 - - + +
1497A LEU* 4.4 1.6 - - - -
1528A MET* 4.4 3.4 - - - -
1535A ILE* 4.1 18.4 - - - -
1666A LEU* 3.0 13.0 + - + +
1669A CYS* 1.3 122.3 - - - +
1671A SER* 1.3 74.2 + - - +
1672A GLY 3.0 1.8 - - - -
1673A GLU* 3.0 32.3 + - - +
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Residues in contact with SER1671 (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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1495A MET* 5.0 4.0 - - - +
1666A LEU 3.4 0.6 + - - -
1667A GLN* 3.7 11.9 + - - -
1668A ARG 4.8 0.6 + - - -
1669A CYS 3.8 0.8 - - - -
1670A CYS* 1.3 78.3 - - - +
1672A GLY* 1.3 59.8 + - - +
1673A GLU* 3.4 18.0 + - - +
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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
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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