Contacts of the helix formed by residues 695 - 718 (chain A) in PDB entry 5ON2
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 695 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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694A LEU* 1.3 77.0 - - - +
696A GLU* 1.3 61.6 + - - +
697A ASN* 3.9 8.9 + - - +
698A GLN* 3.3 39.1 + - - +
699A LYS* 2.8 28.5 + - - +
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Residues in contact with GLU 696 (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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694A LEU 5.4 1.6 - - - +
695A THR* 1.3 72.4 - - - +
697A ASN* 1.3 61.0 + - - +
699A LYS* 4.0 22.2 + - - +
700A ALA* 3.0 30.5 + - - +
798A ASP* 5.1 6.4 - - - +
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Residues in contact with ASN 697 (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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695A THR* 3.3 8.2 + - - +
696A GLU* 1.3 78.2 - - - +
698A GLN* 1.3 59.2 + - + +
700A ALA* 3.5 5.3 + - - +
701A LEU* 3.0 29.9 + - - +
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Residues in contact with GLN 698 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693A ALA 4.4 0.9 - - - +
694A LEU* 3.2 34.0 - - + +
695A THR* 3.3 37.8 + - - +
697A ASN* 1.3 75.0 - - + +
699A LYS* 1.3 60.6 + - - +
701A LEU* 4.4 2.9 - - + -
702A ARG* 3.1 28.9 + - - +
745A GLN* 4.0 13.5 - - - +
746A ASP* 2.9 34.5 + - - +
749A LEU* 3.7 18.3 - - + +
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Residues in contact with LYS 699 (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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694A LEU* 4.3 14.8 - - + +
695A THR 2.8 20.6 + - - +
696A GLU* 4.0 24.4 + - - +
698A GLN* 1.3 73.1 - - - +
700A ALA* 1.3 58.6 + - - +
702A ARG* 3.5 5.6 + - - +
703A ARG* 3.0 33.5 + - - +
793A LYS 6.1 0.7 - - - -
794A ALA 5.0 6.1 - - - +
796A VAL 5.3 9.3 + - - -
798A ASP* 5.1 10.9 + - - +
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Residues in contact with ALA 700 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696A GLU 3.0 19.7 + - - +
697A ASN* 3.9 5.6 - - - +
699A LYS* 1.3 74.5 - - - +
701A LEU* 1.3 64.1 + - - +
703A ARG* 3.4 31.6 + - - +
704A ASP* 3.2 31.2 + - - +
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Residues in contact with LEU 701 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697A ASN 3.0 19.2 + - - +
698A GLN* 3.9 5.6 - - + +
699A LYS 3.4 0.2 - - - -
700A ALA* 1.3 76.4 - - - +
702A ARG* 1.3 57.0 + - - +
704A ASP* 3.2 10.3 + - + +
705A VAL* 3.0 31.8 + - + +
732A LEU* 4.8 3.4 - - + -
735A LYS* 4.3 27.8 - - + +
736A LEU* 4.1 27.1 - - + +
739A ALA* 3.5 27.6 - - + -
749A LEU* 3.7 23.6 - - + -
750A MET* 5.9 0.9 - - + -
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Residues in contact with ARG 702 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689A LEU* 3.8 15.5 - - - +
691A VAL* 4.6 28.0 - - - +
694A LEU* 4.2 19.6 - - + +
698A GLN 3.1 15.5 + - - +
699A LYS* 3.9 5.8 - - - +
700A ALA 3.4 0.2 - - - -
701A LEU* 1.3 75.7 - - - +
703A ARG* 1.3 64.4 + - - +
705A VAL* 3.5 5.2 + - + +
706A HIS* 3.3 45.9 + - + +
749A LEU* 3.8 26.0 - - + +
752A GLU* 3.1 25.2 + - - +
791A ASP* 4.2 13.5 + - - -
794A ALA* 3.4 31.3 - - + +
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Residues in contact with ARG 703 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699A LYS* 3.0 19.1 + - - +
700A ALA* 3.5 33.9 + - - +
701A LEU 3.2 0.2 - - - -
702A ARG* 1.3 76.4 - - - +
704A ASP* 1.3 73.3 + - - +
706A HIS* 3.4 2.1 + - - +
707A LYS* 2.8 43.9 + - + +
794A ALA 3.4 25.3 + - - +
795A MET* 3.8 15.8 - - - +
796A VAL 4.1 9.5 + - - +
797A GLU* 3.2 40.6 + - - +
798A ASP* 4.9 10.7 + - - -
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Residues in contact with ASP 704 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
700A ALA* 3.2 16.2 + - - +
701A LEU* 3.2 11.1 + - + +
703A ARG* 1.3 88.9 + - - +
705A VAL* 1.3 59.8 + - - +
707A LYS* 3.9 13.9 + - - +
708A THR* 2.7 32.9 + - - -
732A LEU* 3.8 8.9 - - + +
735A LYS* 2.7 45.5 + - + +
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Residues in contact with VAL 705 (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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701A LEU* 3.0 22.6 + - + +
702A ARG* 3.7 14.1 - - + +
703A ARG 3.3 0.4 - - - -
704A ASP* 1.3 78.7 - - - +
706A HIS* 1.3 70.2 + - + +
708A THR* 3.5 4.2 + - - -
709A ILE* 3.4 33.1 + - + +
732A LEU* 3.7 26.0 - - + +
736A LEU* 4.6 5.2 - - + -
749A LEU* 5.0 5.8 - - + -
752A GLU* 4.9 6.7 - - + +
753A ALA* 4.1 36.3 - - + +
756A ALA* 4.6 6.7 - - + -
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Residues in contact with HIS 706 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A ARG* 3.3 49.9 + - + +
703A ARG 4.2 0.2 - - - +
705A VAL* 1.3 81.2 - - + +
707A LYS* 1.3 64.6 + - - +
708A THR 3.4 0.2 - - - -
709A ILE* 3.4 19.1 + - + +
710A ALA 3.2 16.3 + - - -
752A GLU* 3.8 22.7 + - + -
789A VAL 4.5 5.1 + - - -
790A ALA* 3.3 14.3 - - - +
791A ASP* 3.5 30.9 + - + +
794A ALA* 3.4 19.3 - - + -
795A MET* 3.3 21.0 - - + +
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Residues in contact with LYS 707 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703A ARG* 2.8 44.4 + - + +
704A ASP* 4.2 12.8 + - - +
706A HIS* 1.3 74.6 - - - +
708A THR* 1.3 58.8 + - - +
710A ALA* 3.4 4.6 + - - +
711A LYS* 3.1 26.7 + - - +
795A MET* 3.9 26.7 - - + +
797A GLU* 3.1 20.9 + - - +
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Residues in contact with THR 708 (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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704A ASP 2.7 24.9 + - - -
705A VAL 3.7 5.4 - - - -
706A HIS 3.4 0.2 - - - -
707A LYS* 1.3 73.2 - - - +
709A ILE* 1.3 60.3 + - - +
711A LYS* 4.4 4.5 - - - +
712A VAL* 2.8 48.0 + - + +
728A ALA* 3.8 28.7 + - + +
729A ILE* 4.1 10.1 - - + -
732A LEU* 3.9 22.2 - - + +
760A MET* 4.2 4.7 - - + -
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Residues in contact with ILE 709 (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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705A VAL* 3.4 19.6 + - + +
706A HIS* 3.6 30.3 - - + +
707A LYS 3.3 0.4 - - - -
708A THR* 1.3 78.5 - - - +
710A ALA* 1.3 56.5 + - - +
712A VAL* 4.5 0.2 - - - +
713A THR* 2.6 36.1 + - - +
756A ALA* 4.0 20.2 - - + -
760A MET* 3.9 23.6 - - + -
787A TRP* 5.3 0.2 - - - +
788A PRO* 3.2 44.0 - - + +
789A VAL 5.1 1.3 - - - +
790A ALA* 3.6 18.6 - - + +
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Residues in contact with ALA 710 (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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706A HIS 3.2 13.0 + - - +
707A LYS* 3.6 8.5 - - - +
708A THR 3.3 0.2 - - - -
709A ILE* 1.3 78.3 - - - +
711A LYS* 1.3 60.6 - - - +
713A THR* 3.8 4.0 - - - -
714A ASP* 3.2 22.2 + - - +
790A ALA* 4.2 7.4 - - + +
795A MET* 4.1 18.4 - - + -
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Residues in contact with LYS 711 (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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707A LYS 3.1 16.5 + - - +
708A THR* 3.9 6.5 - - - +
710A ALA* 1.3 74.8 - - - +
712A VAL* 1.3 60.3 + - - +
714A ASP* 3.1 5.6 + - - +
715A ASP* 2.8 59.3 + - - +
719A ARG* 4.0 3.2 - - - +
724A THR* 4.0 13.0 - - - -
728A ALA* 3.9 26.0 - - + +
731A GLU* 6.0 0.7 - - - -
15B A 4.9 2.0 + - - -
16B U 2.9 34.3 + - - +
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Residues in contact with VAL 712 (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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708A THR* 2.8 31.4 + - + +
709A ILE 4.5 0.4 - - - +
711A LYS* 1.3 71.6 - - - +
713A THR* 1.3 60.9 + - - +
716A ILE* 3.1 47.0 + - + +
725A ALA* 3.5 34.8 - - + +
728A ALA* 4.4 3.4 - - + -
729A ILE* 3.6 20.9 - - + -
760A MET* 3.8 28.0 - - + -
787A TRP* 4.1 5.6 - - + -
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Residues in contact with THR 713 (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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65A TYR* 3.6 18.3 + - - +
69A LEU* 6.0 1.3 - - + -
709A ILE* 2.6 28.4 + - - +
710A ALA* 3.8 5.8 - - - -
712A VAL* 1.3 77.0 - - - +
714A ASP* 1.3 57.2 + - - +
717A GLY* 3.0 27.4 + - - -
787A TRP* 3.0 31.2 + - + +
788A PRO 4.2 1.0 + - - -
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Residues in contact with ASP 714 (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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710A ALA 3.2 13.9 + - - +
711A LYS* 3.1 7.4 + - - +
713A THR* 1.3 79.1 - - - +
715A ASP* 1.3 62.1 + - - +
718A ARG* 2.9 72.0 + - - +
719A ARG* 3.2 15.2 + - - +
16B U 3.7 7.3 + - - +
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Residues in contact with ASP 715 (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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711A LYS* 2.8 48.7 + - - +
712A VAL 4.2 0.2 - - - +
714A ASP* 1.3 78.7 - - - +
716A ILE* 1.3 53.2 + - - +
719A ARG* 3.3 22.6 + - - -
720A GLN 2.8 29.3 + - - -
721A THR* 3.0 31.8 + - - +
724A THR* 2.7 24.7 + - - -
725A ALA* 3.4 17.3 + - + -
16B U 4.5 1.4 + - - -
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Residues in contact with ILE 716 (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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61A VAL* 4.5 5.8 - - + -
62A ILE* 5.1 7.1 - - + +
65A TYR* 3.7 36.1 - - + -
712A VAL* 3.1 37.3 + - + +
713A THR 4.5 0.4 - - - +
715A ASP* 1.3 78.5 - - - +
717A GLY* 1.3 66.7 + - - +
720A GLN* 3.9 15.2 + - - +
722A PHE* 3.9 21.9 - - + -
725A ALA* 4.2 5.8 - - + -
760A MET 4.7 0.7 - - - +
763A PRO* 5.0 3.8 - - + -
764A PHE* 3.7 33.4 - - + -
787A TRP* 4.0 17.7 - - + -
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Residues in contact with GLY 717 (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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65A TYR* 3.8 22.4 - - - -
66A GLN* 6.1 0.4 - - - -
562A GLN* 5.5 0.7 - - - +
713A THR 3.0 18.5 + - - -
716A ILE* 1.3 76.4 - - - +
718A ARG* 1.3 52.4 + - - +
720A GLN* 2.8 23.9 + - - -
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Residues in contact with ARG 718 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
562A GLN* 4.8 3.1 + - - -
713A THR 4.3 0.4 + - - -
714A ASP* 2.9 53.3 + - - +
717A GLY* 1.3 71.7 - - - -
719A ARG* 1.3 75.7 + - - +
720A GLN* 3.1 16.7 + - - +
16B U 3.1 20.8 + - - -
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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