Contacts of the strand formed by residues 793 - 798 (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 LEU 793 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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649C ALA* 3.7 23.8 - - + +
652C VAL* 4.0 14.4 - - + -
653C ALA* 3.8 24.5 - - + +
692C LEU* 3.9 14.8 - - + -
698C ALA* 4.7 13.5 - - + -
700C LYS 3.7 2.0 + - - -
701C ILE* 3.6 9.7 - - + +
702C LEU 3.2 22.5 + - - -
791C PRO* 3.6 2.4 - - - +
792C ASP* 1.3 81.2 - - - +
794C VAL* 1.3 90.1 + - - +
795C LEU* 3.9 22.7 - - + -
831C ALA* 3.8 0.9 - - - -
834C ALA* 3.7 15.0 - - + +
836C VAL* 4.8 5.2 - - + -
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Residues in contact with VAL 794 (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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702C LEU* 3.4 26.7 - - + +
704C VAL* 4.5 1.1 - - + -
791C PRO* 4.0 15.7 - - + -
793C LEU* 1.3 82.4 - - - +
795C LEU* 1.3 67.3 + - - +
796C VAL* 4.0 15.0 - - + -
827C LEU* 4.4 13.2 - - + -
830C LEU* 4.1 14.8 - - + -
831C ALA* 4.0 14.1 - - + -
834C ALA 3.0 14.9 + - - +
835C VAL* 3.4 13.4 - - + +
836C VAL 2.9 26.9 + - - -
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Residues in contact with LEU 795 (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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645C VAL* 4.7 6.7 - - + -
649C ALA* 4.1 24.2 - - + -
685C VAL* 3.6 28.0 - - + +
688C ALA* 4.3 9.9 - - + -
689C CYS* 3.5 38.1 - - + +
692C LEU* 4.7 4.3 - - + -
701C ILE* 4.1 11.7 - - + -
702C LEU 2.9 8.8 + - - +
703C ILE* 3.2 8.1 - - + +
704C VAL 3.1 23.4 + - - -
793C LEU* 3.9 9.3 - - + +
794C VAL* 1.3 74.4 - - - +
796C VAL* 1.3 62.2 + - - +
797C SER 4.2 0.4 - - - -
836C VAL* 3.5 21.3 - - + +
838C ALA* 6.2 0.4 - - + -
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Residues in contact with VAL 796 (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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685C VAL* 4.8 4.0 - - - +
704C VAL* 3.2 11.7 - - + +
706C TRP* 3.8 35.0 - - + -
794C VAL* 4.0 9.4 - - + -
795C LEU* 1.3 78.9 - - - +
797C SER* 1.3 60.8 + - - +
798C ALA* 3.0 11.9 + - + +
827C LEU* 3.7 24.2 - - + -
835C VAL* 4.1 3.1 - - + -
836C VAL 2.8 10.5 + - - +
837C LEU* 3.2 29.4 - - + -
838C ALA* 2.8 33.3 + - - +
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Residues in contact with SER 797 (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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669C HIS* 4.1 6.6 - - - +
685C VAL* 3.6 17.4 - - - +
703C ILE* 4.7 4.9 - - - +
704C VAL 2.9 6.9 + - - -
705C ASP* 3.4 32.7 + - - +
706C TRP 3.3 19.9 + - - -
707C ASP 3.6 0.2 + - - -
714C THR* 5.0 1.9 + - - -
726C TYR* 5.9 0.2 - - - -
795C LEU 4.2 0.4 + - - -
796C VAL* 1.3 69.1 - - - +
798C ALA* 1.3 59.0 + - - +
799C GLY 3.1 8.2 + - - -
838C ALA 3.7 1.6 - - - -
840C GLU* 2.8 33.9 + - - -
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Residues in contact with ALA 798 (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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661C PHE* 4.9 2.2 - - + -
706C TRP* 3.4 32.1 - - + +
796C VAL* 3.0 10.3 + - + +
797C SER* 1.3 67.3 - - - +
799C GLY* 1.3 63.1 + - - +
800C PHE* 3.5 24.2 - - + -
837C LEU* 4.1 15.3 - - + -
838C ALA 2.8 17.9 + - - +
839C LEU* 3.7 4.9 - - - +
840C GLU 3.4 12.5 + - - -
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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