Contacts of the helix formed by residues 763 - 782 (chain A) in PDB entry 1Q6P
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 THR 763 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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520A TYR* 3.5 12.1 + - - -
682A PHE* 3.6 39.5 + - + +
684A VAL* 5.5 0.2 - - - +
761A ILE* 3.6 5.4 - - - +
762A GLN* 1.3 86.4 - - + +
764A ALA* 1.3 65.5 + - - +
765A ASP* 3.3 9.8 + - - +
766A GLN* 2.9 36.8 + - - +
767A LEU* 3.2 9.7 + - - +
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Residues in contact with ALA 764 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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516A TRP* 4.1 10.3 - - + +
517A ALA* 3.8 36.3 - - + +
520A TYR* 3.5 24.4 - - + -
521A GLN* 6.1 0.4 - - - +
763A THR* 1.3 74.4 - - - +
765A ASP* 1.3 57.6 + - - +
767A LEU* 3.3 4.6 + - - +
768A ARG* 3.0 26.7 + - - +
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Residues in contact with ASP 765 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
684A VAL* 3.7 23.7 - - + +
763A THR* 3.1 8.8 + - - +
764A ALA* 1.3 77.2 - - - +
766A GLN* 1.3 59.4 + - - +
768A ARG* 3.3 23.8 + - - +
769A PHE* 2.8 30.2 + - - +
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Residues in contact with GLN 766 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
679A TRP* 5.1 1.6 - - + +
682A PHE* 3.8 19.2 - - - +
683A GLY 3.0 29.2 + - - +
684A VAL* 4.2 9.2 - - + -
720A GLY* 3.7 19.5 - - - +
721A ARG* 4.3 9.9 - - - +
724A THR* 3.6 22.3 - - + +
761A ILE* 3.7 5.3 - - + -
762A GLN* 2.8 29.6 + - - +
763A THR* 2.9 25.3 + - + +
765A ASP* 1.3 76.0 - - - +
767A LEU* 1.3 62.9 + - - +
769A PHE* 3.5 3.0 - - - +
770A SER* 2.9 25.3 + - - -
801A 213 5.2 0.4 + - - -
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Residues in contact with LEU 767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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516A TRP* 4.5 9.6 - - + +
519A ILE* 3.9 28.7 - - + -
520A TYR* 3.9 24.9 - - + +
523A ILE* 4.2 9.4 - - + -
746A ILE* 4.3 9.0 - - + -
750A LEU* 4.1 23.3 - - + -
761A ILE* 3.7 13.2 - - + +
763A THR 3.2 11.4 + - - +
764A ALA* 3.4 9.2 - - - +
765A ASP 3.2 0.2 - - - -
766A GLN* 1.3 77.1 - - - +
768A ARG* 1.3 61.4 + - - +
770A SER* 2.6 28.0 + - - +
771A TYR* 3.2 28.1 + - + -
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Residues in contact with ARG 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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507A PHE* 3.6 20.2 - - + -
511A ASP* 2.8 38.7 + - - -
516A TRP* 3.4 43.7 - - + +
764A ALA 3.0 13.6 + - - +
765A ASP* 3.5 23.5 + - - +
767A LEU* 1.3 77.7 - - - +
769A PHE* 1.3 64.4 + - - +
771A TYR* 3.0 5.9 + - - +
772A LEU* 3.0 37.5 + - - +
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Residues in contact with PHE 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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684A VAL* 4.0 18.2 - - + -
685A PRO* 3.3 52.3 - - + -
687A SER* 3.7 6.7 - - - -
688A PRO* 3.8 33.9 - - + -
691A PHE* 3.6 30.1 - + + -
724A THR* 4.2 10.8 - - + -
765A ASP 2.8 20.7 + - - +
766A GLN* 3.3 4.7 + - - +
768A ARG* 1.3 77.3 - - - +
770A SER* 1.3 62.4 + - - +
772A LEU* 3.2 10.8 + - + +
773A ALA* 2.8 34.0 + - + -
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Residues in contact with SER 770 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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724A THR* 3.8 22.0 - - - -
727A LEU* 3.6 28.9 - - - +
728A ALA* 4.6 6.5 - - - +
746A ILE* 4.6 1.4 - - - +
761A ILE* 4.6 0.9 - - - -
766A GLN 2.9 13.1 + - - -
767A LEU* 2.6 23.6 + - - +
769A PHE* 1.3 82.6 - - - +
771A TYR* 1.3 57.4 + - - +
773A ALA* 3.5 5.5 + - - +
774A VAL* 2.9 35.8 + - - +
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Residues in contact with TYR 771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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506A GLU* 6.2 3.1 - - + -
507A PHE* 3.8 17.0 - + + -
510A ILE* 4.9 11.5 - - + +
516A TRP* 3.6 30.5 - + + -
519A ILE* 4.7 11.7 - - + +
745A ASP* 5.1 1.4 + - - -
746A ILE* 3.6 54.5 + - + +
747A LYS* 4.4 9.6 + - - +
767A LEU* 3.2 29.8 + - + -
768A ARG 3.0 9.9 + - - +
770A SER* 1.3 79.6 + - - +
772A LEU* 1.3 66.5 + - - +
774A VAL* 3.1 3.5 + - - +
775A ILE* 3.0 34.0 + - + +
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Residues in contact with LEU 772 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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507A PHE* 3.9 23.1 - - + -
688A PRO* 3.9 25.6 - - + -
768A ARG* 3.0 27.4 + - - +
769A PHE* 3.5 14.6 - - + +
771A TYR* 1.3 80.7 - - - +
773A ALA* 1.3 64.5 + - - +
775A ILE* 3.2 5.7 + - + +
776A GLU* 3.0 53.0 + - + +
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Residues in contact with ALA 773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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688A PRO* 4.9 6.9 - - + +
691A PHE* 3.9 32.3 - - + -
692A LEU* 3.4 18.0 - - + +
728A ALA* 4.9 2.0 - - + -
732A LEU* 4.7 0.8 - - - +
769A PHE* 2.8 28.5 + - + +
770A SER* 3.7 6.7 - - - +
772A LEU* 1.3 77.7 - - - +
774A VAL* 1.3 56.8 + - - +
776A GLU* 4.7 4.5 - - - -
777A GLY* 3.0 23.2 + - - -
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Residues in contact with VAL 774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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727A LEU* 6.2 0.4 - - + -
728A ALA* 3.7 24.2 - - + +
731A CYS* 3.6 35.7 - - + +
732A LEU* 3.5 10.3 - - + +
735A MET* 3.5 32.1 - - + -
746A ILE* 4.5 12.1 - - + -
770A SER 2.9 22.7 + - - +
771A TYR 3.1 5.1 + - - +
773A ALA* 1.3 74.2 - - - +
775A ILE* 1.3 62.9 + - + +
778A ALA* 2.9 27.5 + - - +
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Residues in contact with ILE 775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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500A PHE* 4.7 7.6 - - + -
503A MET* 4.3 37.7 - - + +
504A GLU* 4.2 23.8 - - + +
507A PHE* 4.3 22.4 - - + -
735A MET* 5.2 5.4 - - + -
771A TYR* 3.0 22.5 + - + +
772A LEU* 3.8 7.6 - - + +
774A VAL* 1.3 77.0 - - + +
776A GLU* 1.3 70.7 + - + +
778A ALA* 3.1 6.3 + - - +
779A LYS* 3.0 37.7 + - + +
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Residues in contact with GLU 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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504A GLU* 4.9 0.9 - - - +
688A PRO* 4.7 11.7 - - + +
692A LEU* 3.8 17.5 - - + -
772A LEU* 3.0 41.4 + - + +
775A ILE* 1.3 77.7 - - + +
777A GLY* 1.3 64.7 + - - +
779A LYS* 3.2 30.8 + - - +
780A PHE* 3.1 22.0 + - - +
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Residues in contact with GLY 777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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692A LEU* 3.5 18.1 - - - +
696A PHE* 4.6 5.3 - - - -
732A LEU* 3.6 11.9 - - - -
773A ALA 3.0 18.3 + - - -
774A VAL 3.9 0.4 - - - -
776A GLU* 1.3 78.6 - - - +
778A ALA* 1.3 60.9 + - - +
780A PHE* 3.3 7.7 + - - +
781A ILE* 3.0 27.3 + - - +
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Residues in contact with ALA 778 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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500A PHE* 3.8 14.1 - - + -
732A LEU* 3.3 10.7 - - + +
735A MET* 3.7 25.1 - - + -
774A VAL 2.9 18.4 + - - +
775A ILE* 3.6 3.8 - - - +
777A GLY* 1.3 72.3 - - - +
779A LYS* 1.3 67.4 + - - +
781A ILE* 3.1 2.1 + - - -
782A MET* 2.8 45.4 + - + +
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Residues in contact with LYS 779 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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500A PHE* 3.4 33.7 - - + -
504A GLU* 2.9 42.3 + - - +
775A ILE* 3.0 19.5 + - + +
776A GLU* 3.2 32.4 + - - +
778A ALA* 1.3 76.4 - - - +
780A PHE* 1.3 62.6 + - - +
782A MET* 3.6 15.9 + - - +
783A GLY* 3.7 2.9 + - - -
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Residues in contact with PHE 780 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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692A LEU* 6.0 1.1 - - + -
696A PHE* 4.1 30.3 - + + -
776A GLU 3.1 12.6 + - - +
777A GLY* 3.4 11.7 - - - +
778A ALA 3.1 0.2 - - - -
779A LYS* 1.3 77.5 - - - +
781A ILE* 1.3 67.5 + - + +
783A GLY* 3.4 12.8 + - - +
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Residues in contact with ILE 781 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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696A PHE* 4.2 18.4 - - + -
699A ARG* 3.8 25.8 - - - +
732A LEU* 4.4 17.3 - - + +
736A ASP* 4.1 16.2 - - + +
777A GLY 3.0 19.6 + - - +
780A PHE* 1.3 79.4 - - + +
782A MET* 1.3 81.3 + - + +
783A GLY 3.0 10.2 + - - +
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Residues in contact with MET 782 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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500A PHE* 4.1 22.4 - - + -
732A LEU* 5.3 1.1 - - + +
735A MET* 4.4 12.8 - - + +
736A ASP* 3.7 35.0 - - + +
741A PRO* 5.1 5.2 - - + -
778A ALA* 2.8 41.6 + - + +
779A LYS* 3.7 7.3 - - - +
780A PHE 3.4 0.2 - - - -
781A ILE* 1.3 107.9 - - + +
783A GLY* 1.3 58.2 + - - +
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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