Contacts of the helix formed by residues 726 - 739 (chain C) in PDB entry 3HZJ
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 726 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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666C LYS* 5.3 3.8 + - - -
723C GLU 5.1 5.9 + - - +
724C GLY 3.2 2.8 + - - +
725C LEU* 1.3 77.0 - - - +
727C ILE* 1.3 63.3 + - + +
728C ILE 3.1 0.2 - - - -
729C PHE* 2.9 31.4 + - + +
730C HIS* 3.3 19.3 - - + +
781C VAL* 5.6 1.7 + - + +
783C THR* 4.0 20.2 - - - +
786C LEU* 3.7 31.0 - - + +
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Residues in contact with ILE 727 (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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716C ILE* 5.0 6.3 - - + +
719C LEU* 3.5 46.4 - - + +
720C LEU* 4.6 4.3 - - + +
723C GLU* 3.0 35.9 - - + +
724C GLY 3.2 17.7 + - - +
725C LEU 2.9 1.2 + - - +
726C ASN* 1.3 78.2 - - + +
728C ILE* 1.3 65.6 + - + +
730C HIS* 3.1 23.0 + - + +
731C VAL* 3.1 35.9 + - + +
776C ALA* 6.1 0.4 - - + -
777C CYS* 5.5 4.5 - - - -
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Residues in contact with ILE 728 (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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699C TRP* 4.0 10.5 - - + +
700C PHE* 3.6 39.3 - - + -
703C LEU* 3.8 31.9 - - + -
704C PHE* 3.5 37.9 - - + -
716C ILE* 4.3 12.1 - - + -
720C LEU* 5.4 2.9 - - + -
725C LEU* 2.8 24.7 + - + +
727C ILE* 1.3 80.8 - - + +
729C PHE* 1.3 60.0 + - - +
731C VAL* 4.1 0.7 - - + +
732C ALA* 3.1 23.6 + - + +
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Residues in contact with PHE 729 (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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666C LYS* 3.3 43.3 - - + -
669C GLN* 3.2 33.2 - - + -
670C LEU* 3.8 19.5 - - + -
673C LEU* 3.9 16.6 - - + -
700C PHE* 3.5 18.4 - + - -
726C ASN* 2.9 33.3 + - - +
728C ILE* 1.3 78.2 - - - +
730C HIS* 1.3 61.0 + - - +
732C ALA* 3.8 3.6 - - - +
733C LEU* 3.2 32.0 + - - +
781C VAL* 4.0 16.6 - - + -
786C LEU* 4.2 17.9 - - + -
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Residues in contact with HIS 730 (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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723C GLU* 5.5 2.0 + - - -
726C ASN* 3.3 28.9 - - - +
727C ILE* 3.1 28.9 + - + +
729C PHE* 1.3 76.4 - - - +
731C VAL* 1.3 65.0 + - + +
733C LEU* 4.8 1.1 - - - -
734C ALA 3.2 15.9 + - - -
776C ALA* 3.0 35.4 + - + +
777C CYS* 4.6 5.8 - - - -
779C ILE* 3.1 32.9 + - - +
780C LYS* 5.0 0.2 - - - -
781C VAL* 3.8 34.6 + - + +
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Residues in contact with VAL 731 (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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704C PHE* 3.7 35.9 - - + -
712C MSE 5.4 0.7 - - + -
716C ILE* 4.7 6.7 - - + -
719C LEU* 5.5 0.2 - - + -
727C ILE* 3.1 31.2 + - + +
730C HIS* 1.3 73.0 - - - +
732C ALA* 1.3 65.5 + - - +
734C ALA* 3.1 2.1 + - - +
735C LEU* 3.0 29.3 + - + +
772C LEU* 4.4 9.0 - - + -
773C MSE 4.1 32.1 - - + -
776C ALA* 3.8 16.6 - - + -
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Residues in contact with ALA 732 (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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670C LEU* 3.8 21.8 - - + -
699C TRP* 3.9 30.4 - - + -
700C PHE* 5.5 1.8 - - + -
704C PHE* 4.2 3.5 - - + -
728C ILE* 3.1 22.6 + - + +
729C PHE* 3.8 5.2 - - - +
731C VAL* 1.3 78.2 - - - +
733C LEU* 1.3 57.8 + - - +
735C LEU* 3.3 4.3 + - - +
736C LEU* 3.0 34.7 + - - +
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Residues in contact with LEU 733 (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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670C LEU* 4.0 19.7 - - + -
673C LEU* 4.2 24.7 - - + +
674C MSE 4.1 19.7 - - + +
677C GLN* 3.8 15.0 - - - +
678C LEU* 4.3 13.7 - - + +
729C PHE 3.2 18.9 + - - +
730C HIS 3.9 0.4 - - - +
732C ALA* 1.3 80.7 - - - +
734C ALA* 1.3 56.0 + - - +
736C LEU* 3.8 5.0 - - + +
737C LYS* 2.9 30.8 + - - +
779C ILE* 3.7 24.2 - - + +
781C VAL* 3.7 25.6 - - + -
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Residues in contact with ALA 734 (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 3.2 12.5 + - - +
731C VAL 3.1 6.7 + - - +
733C LEU* 1.3 73.1 - - - +
735C LEU* 1.3 62.4 + - - +
737C LYS* 3.8 2.9 - - - +
738C THR* 3.0 35.3 + - - -
772C LEU* 4.0 16.4 - - + +
775C GLN* 4.2 8.4 + - + +
776C ALA* 3.8 20.9 - - + +
779C ILE* 3.3 19.0 - - + +
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Residues in contact with LEU 735 (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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699C TRP* 4.2 15.5 - - + -
704C PHE* 3.5 32.8 - - + -
708C PHE* 4.0 20.2 - - + -
712C MSE 5.4 0.4 - - + -
731C VAL* 3.0 20.7 + - + +
732C ALA* 3.6 5.4 - - - +
734C ALA* 1.3 73.8 - - - +
736C LEU* 1.3 62.0 + - - +
738C THR* 3.7 0.9 + - - -
739C SER* 2.6 33.0 + - - -
755C PHE* 6.1 0.7 - - - -
759C LEU* 4.0 17.9 - - + -
763C TYR* 3.4 38.8 - - + +
772C LEU* 3.8 15.7 - - + +
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Residues in contact with LEU 736 (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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670C LEU* 4.4 7.9 - - + -
674C MSE 3.9 33.2 - - + -
678C LEU* 3.7 13.7 - - + -
681C LEU* 3.8 21.4 - - + +
685C PHE* 4.3 9.6 - - + -
695C TYR* 4.4 5.4 - - + -
699C TRP* 4.6 11.2 - - + -
732C ALA 3.0 28.1 + - - +
733C LEU* 3.8 6.1 - - + +
735C LEU* 1.3 75.7 - - - +
737C LYS* 1.3 58.9 + - - +
739C SER* 3.2 3.6 + - - -
740C LYS* 2.9 28.1 + - - -
743C LEU* 4.2 5.6 - - + +
755C PHE* 3.8 32.8 - - + -
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Residues in contact with LYS 737 (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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678C LEU* 4.0 26.9 - - + +
733C LEU 2.9 19.1 + - - +
734C ALA* 3.8 5.2 - - - +
736C LEU* 1.3 77.6 - - - +
738C THR* 1.3 63.3 + - - +
740C LYS* 3.3 23.8 + - - +
779C ILE* 5.1 14.6 - - + -
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Residues in contact with THR 738 (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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734C ALA 3.0 12.8 + - - -
735C LEU 4.3 2.5 - - - -
737C LYS* 1.3 78.2 - - - +
739C SER* 1.3 59.7 + - - +
740C LYS 3.3 0.8 + - - -
741C GLU* 5.0 2.9 + - - +
742C ASP* 5.2 1.6 - - - +
762C ARG* 5.1 8.2 + - - +
763C TYR* 4.5 16.8 - - - +
775C GLN* 2.9 32.2 + - - +
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Residues in contact with SER 739 (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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735C LEU 2.6 24.0 + - - -
736C LEU 3.2 1.5 + - - -
738C THR* 1.3 76.3 - - - +
740C LYS* 1.3 64.9 + - - +
741C GLU 3.3 2.2 - - - -
742C ASP* 3.1 13.6 + - - +
743C LEU* 2.9 32.0 + - - +
754C PHE* 3.6 23.7 - - - -
755C PHE* 6.0 0.2 - - - -
759C LEU* 3.4 24.7 - - - +
762C ARG* 4.4 3.3 + - - +
763C TYR* 5.1 0.3 + - - -
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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