Contacts of the helix formed by residues 755 - 777 (chain C) in PDB entry 6AH0
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 ASP 755 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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751C PRO 3.3 10.1 + - - +
752C SER* 3.3 6.3 - - - +
754C VAL* 1.3 77.6 - - - +
756C LYS* 1.3 62.5 + - - +
757C ALA 3.5 3.1 + - - +
758C LEU* 4.0 2.9 + - - -
759C LEU* 3.6 13.9 + - - -
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Residues in contact with LYS 756 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
752C SER 3.2 13.0 + - - -
753C GLU* 3.9 5.2 + - - +
754C VAL 3.8 2.2 - - - -
755C ASP* 1.3 74.1 - - - +
757C ALA* 1.3 67.5 + - - +
759C LEU* 2.8 13.0 + - - +
760C GLY* 2.8 12.6 + - - -
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Residues in contact with ALA 757 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
755C ASP 3.5 1.6 - - - -
756C LYS* 1.3 76.7 - - - +
758C LEU* 1.3 60.7 + - - +
760C GLY* 3.6 6.4 + - - -
761C SER* 3.9 6.4 + - - -
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Residues in contact with LEU 758 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
755C ASP 4.0 3.9 + - - -
756C LYS 3.2 0.2 - - - -
757C ALA* 1.3 73.0 - - - +
759C LEU* 1.3 66.2 + - - +
761C SER* 3.2 4.4 + - - +
762C VAL* 2.9 19.9 + - - -
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Residues in contact with LEU 759 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
752C SER* 5.7 3.4 - - - +
755C ASP 3.6 10.8 + - - -
756C LYS* 2.8 11.2 + - - +
758C LEU* 1.3 76.9 - - - +
760C GLY* 1.3 55.7 + - - +
762C VAL* 4.5 0.9 - - - +
763C LYS* 2.8 28.8 + - - -
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Residues in contact with GLY 760 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
756C LYS 2.8 13.3 + - - -
757C ALA 3.6 3.1 + - - -
758C LEU 3.2 0.2 - - - -
759C LEU* 1.3 75.1 - - - +
761C SER* 1.3 56.0 + - - +
763C LYS* 3.2 2.5 + - - -
764C ASP* 2.9 25.5 + - - -
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Residues in contact with SER 761 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757C ALA 3.9 5.6 + - - -
758C LEU* 3.2 8.1 + - - +
760C GLY* 1.3 74.1 - - - +
762C VAL* 1.3 63.0 + - - +
764C ASP* 3.2 3.6 + - - +
765C SER* 3.0 18.7 + - - -
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Residues in contact with VAL 762 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
758C LEU 2.9 14.4 + - - -
759C LEU* 3.8 2.7 - - - +
761C SER* 1.3 75.8 - - - +
763C LYS* 1.3 56.5 - - - +
765C SER* 3.2 2.4 + - - +
766C ILE* 2.8 26.9 + - - -
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Residues in contact with LYS 763 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
759C LEU 2.8 17.3 + - - -
760C GLY* 3.6 1.8 - - - -
762C VAL* 1.3 76.4 - - - +
764C ASP* 1.3 55.0 + - - +
766C ILE* 3.2 2.0 + - - +
767C VAL* 2.8 27.9 + - - -
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Residues in contact with ASP 764 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760C GLY 2.9 14.6 + - - -
761C SER* 3.2 4.6 + - - +
763C LYS* 1.3 75.1 - - - +
765C SER* 1.3 62.4 + - - +
767C VAL* 3.2 2.6 + - - +
768C GLN* 3.0 19.9 + - - -
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Residues in contact with SER 765 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
761C SER 3.0 13.9 + - - -
762C VAL* 3.7 2.9 - - - +
764C ASP* 1.3 75.5 - - - +
766C ILE* 1.3 58.1 + - - +
768C GLN* 3.2 3.7 + - - +
769C GLY* 3.0 23.9 + - - -
808C ILE 5.8 0.7 - - - -
809C ILE* 4.6 11.8 - - - +
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Residues in contact with ILE 766 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
762C VAL 2.8 15.9 + - - -
763C LYS* 3.6 2.9 - - - +
765C SER* 1.3 73.4 - - - +
767C VAL* 1.3 60.0 + - - +
769C GLY* 3.2 2.7 + - - +
770C PHE* 2.8 26.9 + - - -
808C ILE 5.5 4.0 - - - -
812C ALA* 5.3 10.8 - - - +
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Residues in contact with VAL 767 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736C GLY* 5.7 1.7 - - - -
763C LYS 2.8 19.9 + - - -
764C ASP* 3.6 2.7 - - - +
766C ILE* 1.3 68.2 - - - +
768C GLN* 1.3 59.9 + - - +
770C PHE* 3.6 2.1 - - - +
771C GLN* 2.8 26.3 + - - -
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Residues in contact with GLN 768 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
764C ASP 3.0 13.7 + - - -
765C SER* 3.2 4.4 + - - +
767C VAL* 1.3 75.7 - - - +
769C GLY* 1.3 61.7 + - - +
771C GLN* 3.2 2.7 + - - +
772C TRP* 3.0 19.8 + - - -
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Residues in contact with GLY 769 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765C SER 3.0 13.4 + - - -
766C ILE* 3.2 4.2 + - - -
768C GLN* 1.3 76.9 - - - +
770C PHE* 1.3 56.3 + - - +
772C TRP* 3.2 3.6 + - - -
773C GLY* 2.9 25.1 + - - -
809C ILE* 3.9 24.4 - - - +
812C ALA* 5.0 1.1 - - - -
813C ARG* 4.1 15.1 - - - -
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Residues in contact with PHE 770 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736C GLY* 5.5 2.8 - - - -
766C ILE 2.8 16.2 + - - -
767C VAL* 3.6 3.1 - - - +
769C GLY* 1.3 72.1 - - - +
771C GLN* 1.3 59.5 + - - +
773C GLY* 3.2 2.7 + - - +
774C THR* 2.9 26.5 + - - -
812C ALA 5.0 6.3 - - - -
813C ARG* 5.7 0.2 - - - +
816C VAL* 6.3 2.2 - - - +
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Residues in contact with GLN 771 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736C GLY* 4.4 25.0 - - - -
737C PRO* 4.3 9.5 - - - +
767C VAL 2.8 14.9 + - - -
768C GLN* 3.6 3.8 - - - +
770C PHE* 1.3 74.7 - - - +
772C TRP* 1.3 64.8 + - - +
774C THR* 3.2 10.4 + - - +
775C ARG* 3.4 9.5 + - - -
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Residues in contact with TRP 772 (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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768C GLN 3.0 13.2 + - - -
769C GLY* 3.2 4.5 + - - -
771C GLN* 1.3 78.6 - - - +
773C GLY* 1.3 62.1 + - - +
774C THR 3.4 0.2 + - - -
775C ARG* 3.6 1.0 + - - -
776C GLU* 3.5 16.1 + - - -
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Residues in contact with GLY 773 (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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769C GLY 2.9 14.1 + - - -
770C PHE* 3.2 4.2 + - - -
772C TRP* 1.3 78.5 - - - +
774C THR* 1.3 62.0 + - - +
776C GLU* 4.2 0.2 - - - -
777C GLY* 3.4 22.0 + - - -
813C ARG* 5.0 13.9 - - - +
816C VAL* 6.5 1.1 - - - -
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Residues in contact with THR 774 (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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737C PRO* 5.8 4.7 - - - -
770C PHE 2.9 14.6 + - - -
771C GLN 3.2 2.8 + - - -
773C GLY* 1.3 77.6 - - - +
775C ARG* 1.3 57.8 + - - +
777C GLY* 4.0 0.9 + - - -
782C GLU 3.7 1.7 - - - +
783C LEU* 3.5 0.6 - - - -
784C ILE* 2.7 37.5 + - - +
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Residues in contact with ARG 775 (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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737C PRO* 5.2 6.8 - - - +
771C GLN 3.4 12.3 + - - -
772C TRP 3.6 1.8 + - - -
773C GLY 3.4 0.2 - - - -
774C THR* 1.3 76.1 - - - +
776C GLU* 1.3 56.5 + - - +
781C ASP 4.4 0.3 - - - +
782C GLU* 3.0 23.6 - - - -
783C LEU* 3.1 8.1 + - - +
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Residues in contact with GLU 776 (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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772C TRP 3.5 12.6 + - - -
773C GLY 4.2 1.1 - - - -
774C THR 3.5 0.6 - - - -
775C ARG* 1.3 71.7 - - - +
777C GLY* 1.3 54.0 + - - +
781C ASP* 2.1 48.1 - - - -
782C GLU 3.0 5.8 - - - -
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Residues in contact with GLY 777 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
773C GLY 3.4 15.1 + - - -
774C THR 4.0 2.2 + - - -
776C GLU* 1.3 80.2 - - - +
778C PRO* 1.3 59.9 - - - +
779C LEU 3.5 3.8 + - - -
780C CYS 5.4 0.2 - - - -
781C ASP* 4.0 5.3 - - - -
782C GLU 2.8 20.1 + - - -
783C LEU 5.3 0.2 - - - -
784C ILE* 5.2 2.5 - - - -
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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