Contacts of the strand formed by residues 1623 - 1630 (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 ILE1623 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1586C SER* 4.4 10.3 - - - -
1590C PHE* 4.0 27.6 - - + -
1602C ASN* 3.9 20.9 - - + +
1604C VAL* 3.8 29.2 - - + -
1619C LEU* 3.9 27.1 - - + +
1620C PRO* 3.1 29.3 + - + +
1621C GLY 4.3 5.0 - - - +
1622C ASP* 1.3 91.2 - - - +
1624C GLN* 1.3 63.6 + - - +
1625C VAL* 3.6 8.2 + - + +
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Residues in contact with GLN1624 (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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1602C ASN 3.1 14.1 + - - +
1603C LEU* 3.3 23.8 - - + +
1604C VAL* 2.8 27.7 + - - +
1622C ASP 4.0 1.4 + - - -
1623C ILE* 1.3 71.8 - - - +
1625C VAL* 1.3 60.0 + - - +
1626C VAL* 4.3 8.1 - - - +
1646C ASN* 3.1 37.0 - - - +
1668C ARG* 5.9 4.2 + - - +
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Residues in contact with VAL1625 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1582C LEU* 5.0 5.4 - - + -
1604C VAL* 3.5 23.3 - - + +
1606C MET* 4.9 6.3 - - + -
1619C LEU* 4.0 31.4 - - + +
1623C ILE* 3.6 10.4 + - + +
1624C GLN* 1.3 79.1 - - - +
1626C VAL* 1.3 71.5 + - - +
1627C PRO* 3.5 11.7 - - + +
1642C ILE* 3.9 36.6 - - + +
1643C GLY* 3.6 5.6 + - - +
1646C ASN* 3.2 20.4 + - - +
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Residues in contact with VAL1626 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1603C LEU* 4.3 14.4 - - + -
1604C VAL 2.8 8.9 + - - -
1605C TYR* 3.5 34.1 - - + -
1606C MET 3.3 16.8 + - - -
1624C GLN* 4.3 13.2 - - - +
1625C VAL* 1.3 78.3 - - - +
1627C PRO* 1.3 69.8 - - - +
1628C ILE* 3.6 3.1 + - + +
1646C ASN* 4.6 4.3 - - + -
1647C ALA 4.4 1.6 - - - +
1649C ILE* 3.8 29.8 - - + -
1665C VAL* 4.9 0.2 - - + -
1668C ARG* 4.1 27.1 - - + +
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Residues in contact with PRO1627 (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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1606C MET* 3.7 13.5 - - + +
1625C VAL* 3.5 10.5 - - + +
1626C VAL* 1.3 85.3 - - + +
1628C ILE* 1.3 61.3 + - - +
1629C GLY 3.9 0.7 - - - -
1639C LEU* 3.4 50.7 - - + +
1642C ILE* 4.1 13.0 - - + -
1643C GLY* 3.6 17.5 - - - +
1646C ASN 4.6 0.9 - - - +
1647C ALA 4.6 1.3 - - - +
1648C PRO* 3.3 15.6 - - + +
1649C ILE* 2.8 25.5 + - - +
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Residues in contact with ILE1628 (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* 3.4 37.7 - - + -
1605C TYR* 4.3 11.9 - - + -
1606C MET 2.7 14.0 + - - +
1607C VAL* 3.5 10.0 - - + -
1608C THR* 3.1 27.2 + - - +
1626C VAL* 3.9 6.7 - - + +
1627C PRO* 1.3 76.3 - - - +
1629C GLY* 1.3 59.4 + - - +
1630C VAL* 3.8 9.2 + - + +
1639C LEU* 4.8 0.9 - - - -
1649C ILE* 3.3 24.0 - - + +
1651C ILE* 4.2 9.0 - - + -
1657C LEU* 3.7 26.7 - - + -
1661C ALA* 4.9 2.0 - - + -
1665C VAL* 4.2 15.5 - - + -
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Residues in contact with GLY1629 (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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1608C THR 3.4 6.5 - - - -
1627C PRO 3.9 1.4 - - - -
1628C ILE* 1.3 72.1 - - - +
1630C VAL* 1.3 62.0 + - - -
1631C GLY 4.2 0.5 + - - +
1634C ALA* 4.0 7.0 - - - -
1639C LEU* 3.5 28.5 - - - +
1648C PRO* 5.5 0.2 - - - +
1649C ILE 2.9 11.5 + - - -
1650C LEU* 3.5 7.5 - - - +
1651C ILE 2.8 27.5 + - - +
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Residues in contact with VAL1630 (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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1607C VAL* 4.1 17.5 - - + -
1608C THR 2.9 8.2 + - - +
1609C GLY* 3.4 22.5 - - - +
1628C ILE* 4.0 25.1 - - + +
1629C GLY* 1.3 77.0 - - - +
1631C GLY* 1.3 69.3 + - - +
1634C ALA* 3.9 2.4 - - - +
1651C ILE* 3.4 9.9 - - + +
1653C ASP* 3.5 31.2 - - - +
1654C PHE* 3.6 35.1 - - + -
1657C LEU* 4.1 9.9 - - + -
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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