Contacts of the strand formed by residues 756 - 761 (chain C) in PDB entry 3ZNS
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 ASN 756 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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202C K 4.3 7.3 - - - -
715C GLN* 3.3 37.2 + - - +
719C TYR* 4.2 6.8 - - + -
726C TYR* 3.4 35.3 - - - +
746C GLU 3.1 20.3 - - - +
747C VAL* 3.3 26.9 + - - -
748C GLY* 3.7 6.5 - - - +
754C GLY 3.2 2.4 - - - -
755C PHE* 1.3 78.4 - - - +
757C VAL* 1.3 59.8 + - - +
758C ASN* 3.5 6.4 + - - +
891C HIS* 3.0 18.4 + - - -
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Residues in contact with VAL 757 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
725C LEU* 4.5 5.8 - - + -
726C TYR 2.7 12.6 + - - +
727C ILE* 3.2 15.4 - - + +
728C SER 2.9 24.4 + - - -
754C GLY 4.3 2.2 - - - +
756C ASN* 1.3 71.4 - - - +
758C ASN* 1.3 62.8 + - - +
759C VAL* 3.7 4.3 + - + -
781C VAL* 3.8 28.0 - - + -
785C ILE* 3.7 26.7 - - + -
887C VAL* 4.0 16.4 - - + -
891C HIS* 3.4 25.6 - - + +
895C TRP* 4.2 6.7 - - - +
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Residues in contact with ASN 758 (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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710C HIS* 3.5 10.7 + - - -
715C GLN* 2.9 30.2 + - - +
726C TYR* 4.2 3.5 - - - -
728C SER* 3.6 11.0 - - - -
730C HIS* 3.9 3.6 - - - +
742C GLY* 3.2 29.4 - - - +
743C ALA 3.1 23.9 + - - +
744C VAL* 3.9 13.6 + - - +
746C GLU* 3.6 7.5 + - - +
756C ASN* 3.5 14.0 + - - +
757C VAL* 1.3 73.5 - - - +
759C VAL* 1.3 60.7 + - - +
760C ALA 3.1 4.9 + - - -
887C VAL* 3.6 14.8 - - - +
891C HIS* 4.6 2.7 + - - -
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Residues in contact with VAL 759 (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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727C ILE* 4.6 6.5 - - + -
728C SER 2.6 16.6 + - - +
729C LEU* 3.5 15.0 - - + -
730C HIS* 3.1 23.9 + - - +
757C VAL* 4.4 7.0 - - + -
758C ASN* 1.3 69.2 - - - +
760C ALA* 1.3 60.1 + - - +
761C TRP* 3.4 39.3 + - + -
777C ALA* 4.6 4.0 - - + -
781C VAL* 4.1 29.4 - - + -
782C VAL* 4.9 2.9 - - + -
883C SER* 5.8 1.3 - - - -
884C LEU* 4.1 13.0 - - + -
887C VAL* 4.0 11.9 - - + -
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Residues in contact with ALA 760 (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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730C HIS* 3.6 8.7 - - + -
732C HIS* 3.5 26.5 - - + +
742C GLY 3.6 21.1 - - - +
744C VAL* 4.2 17.6 - - + +
758C ASN 3.1 5.0 + - - +
759C VAL* 1.3 70.9 - - - +
761C TRP* 1.3 64.9 + - - +
762C ALA* 3.4 5.6 + - + +
883C SER* 3.6 16.5 - - - +
887C VAL* 4.7 3.3 - - - +
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Residues in contact with TRP 761 (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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729C LEU* 4.2 10.4 - - + +
730C HIS 2.8 35.1 + - - +
732C HIS* 2.9 26.6 + - - -
733C ASP* 3.1 9.5 + - - +
759C VAL* 3.9 21.1 - - + -
760C ALA* 1.3 69.1 - - - +
762C ALA* 1.3 60.4 + - - +
769C MET* 3.3 23.1 - - + -
773C GLU* 3.5 30.5 - - + -
774C TYR* 3.5 25.0 + + - -
777C ALA* 3.9 16.4 - - + -
813C TYR* 3.2 33.4 - + - +
880C ALA* 3.5 39.0 - - + -
883C SER* 3.9 8.1 - - - -
884C LEU* 4.1 10.3 - - + -
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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