Contacts of the strand formed by residues 1710 - 1715 (chain E) in PDB entry 2ZLE
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 LEU1710 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1588E VAL* 4.5 6.1 - - + -
1590E ILE* 3.9 19.3 - - + -
1598E VAL* 4.9 0.9 - - + -
1647E ILE* 3.9 12.9 - - + +
1648E LYS 2.9 16.6 + - - +
1649E MET* 3.6 25.8 - - + -
1650E ALA* 2.9 26.0 + - - +
1702E ALA* 4.2 16.6 - - + -
1703E LEU 3.6 16.2 - - - +
1704E VAL* 4.0 5.9 - - + +
1708E GLY 4.0 0.8 + - - -
1709E GLU* 1.3 70.5 - - - +
1711E ILE* 1.3 59.7 + - - +
1712E GLY 3.6 15.0 - - - +
1713E ILE* 3.6 26.9 - - + -
1733E SER* 3.2 13.1 + - - -
1736E VAL* 5.1 4.0 - - + -
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Residues in contact with ILE1711 (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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1650E ALA* 4.2 6.7 - - + -
1651E ASP 6.3 0.2 - - - -
1652E SER* 3.6 5.2 + - - -
1655E LEU* 4.1 33.4 - - + +
1660E TYR 4.8 1.6 - - - +
1661E THR* 3.5 25.6 - - - +
1679E VAL* 5.0 2.7 - - + -
1688E ILE* 3.7 7.3 - - - +
1703E LEU* 2.8 32.1 + - + +
1704E VAL 3.9 13.0 - - - -
1705E ASN* 3.7 28.9 - - + +
1709E GLU 3.6 10.8 - - - +
1710E LEU* 1.3 76.9 - - - +
1712E GLY* 1.3 57.4 + - - +
1732E PRO* 3.5 5.0 - - - +
1733E SER* 2.6 32.5 + - - -
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Residues in contact with GLY1712 (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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1688E ILE* 4.8 0.4 - - - -
1703E LEU* 2.8 38.2 + - - +
1710E LEU* 3.6 2.3 - - - +
1711E ILE* 1.3 81.0 - - - +
1713E ILE* 1.3 71.3 + - - +
1730E ALA* 4.3 5.4 - - - -
1731E ILE 2.8 15.9 - - - -
1732E PRO* 4.2 0.2 - - - -
1733E SER* 3.7 5.1 - - - -
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Residues in contact with ILE1713 (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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1588E VAL* 4.9 5.6 - - + -
1598E VAL* 3.9 31.9 - - + +
1599E THR* 5.0 7.0 - - - -
1600E ASN* 3.9 14.6 - - - +
1633E ILE* 3.8 25.6 - - + -
1701E GLY* 3.1 13.7 - - - +
1702E ALA* 5.0 0.4 - - - -
1710E LEU* 3.6 35.7 - - + -
1712E GLY* 1.3 76.5 - - - +
1714E ASN* 1.3 75.9 + - - +
1715E THR* 3.6 0.9 + - - -
1730E ALA* 3.8 1.6 - - - -
1731E ILE* 2.9 30.5 + - + +
1736E VAL* 4.2 9.8 - - + +
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Residues in contact with ASN1714 (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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1600E ASN* 2.7 27.0 + - - -
1663E ALA* 3.9 11.8 - - - +
1690E THR* 4.3 13.1 - - - +
1692E ALA 4.9 5.0 + - - -
1699E SER* 4.8 1.6 - - - -
1700E GLY* 3.3 17.3 - - - +
1701E GLY 2.3 44.6 + - - +
1702E ALA 3.3 18.2 - - - +
1703E LEU* 3.8 15.2 - - - +
1712E GLY 4.0 0.4 - - - -
1713E ILE* 1.3 68.6 - - - +
1715E THR* 1.3 53.9 + - - +
1728E GLY* 4.9 2.6 - - - -
1729E PHE 3.7 11.3 + - - +
1730E ALA* 3.8 14.9 - - - +
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Residues in contact with THR1715 (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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1600E ASN* 3.7 6.7 - - - +
1631E SER 4.2 4.4 + - - -
1632E ASP* 2.6 29.8 + - - +
1687E PHE* 3.6 26.8 - - + -
1699E SER* 3.0 18.8 - - - -
1713E ILE* 4.5 3.1 - - - -
1714E ASN* 1.3 76.0 - - - +
1716E ALA* 1.3 77.5 + - - +
1717E ILE* 4.2 4.1 + - + +
1724E ASN* 6.1 0.9 - - - +
1729E PHE* 2.7 44.0 + - + +
1730E ALA* 4.3 3.1 - - - -
1731E ILE* 4.6 3.8 - - + +
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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