Contacts of the helix formed by residues 796 - 818 (chain A) in PDB entry 6MZL
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 SER 796 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
792A PRO* 3.8 8.8 - - - +
793A GLY* 3.0 25.3 + - - -
794A PRO 3.2 3.1 - - - -
795A ASN* 1.3 79.0 - - - +
797A LYS* 1.3 59.8 + - - +
798A ARG* 3.7 4.4 + - - +
799A ALA* 3.2 17.8 + - - +
800A ASN* 2.9 32.1 + - - -
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Residues in contact with LYS 797 (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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795A ASN 5.1 6.3 + - - -
796A SER* 1.3 73.2 - - - +
798A ARG* 1.3 55.9 + - - +
800A ASN* 3.9 9.7 - - + +
801A THR* 2.6 38.2 + - - +
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Residues in contact with ARG 798 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789A PHE* 3.3 35.8 - - - -
790A GLU* 4.5 8.6 + - - +
792A PRO* 3.6 34.0 - - + +
796A SER* 3.3 6.3 + - - +
797A LYS* 1.3 77.2 - - - +
799A ALA* 1.3 63.5 + - - +
801A THR* 3.4 6.3 + - - -
802A HIS* 3.1 58.1 + - - +
884A GLN* 3.4 27.0 + - - +
887A ALA* 4.7 0.2 - - - +
888A TYR* 6.0 0.6 - - - +
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Residues in contact with ALA 799 (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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792A PRO* 4.1 14.4 - - + -
793A GLY 3.6 13.9 - - - +
795A ASN* 4.6 2.7 - - - +
796A SER* 3.2 25.5 + - - +
798A ARG* 1.3 79.1 - - - +
800A ASN* 1.3 62.5 + - - +
802A HIS* 3.3 7.3 + - - +
803A ILE* 3.2 30.7 + - + +
888A TYR* 4.7 5.0 - - + -
891A MET* 4.1 18.2 - - + -
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Residues in contact with ASN 800 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
795A ASN* 3.3 35.2 + - - +
796A SER 2.9 24.2 + - - +
797A LYS* 4.1 11.9 - - + +
799A ALA* 1.3 73.9 - - - +
801A THR* 1.3 63.6 + - - +
803A ILE* 3.7 15.0 + - - +
804A ARG* 3.3 22.7 + - - +
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Residues in contact with THR 801 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797A LYS* 2.6 24.6 + - - +
798A ARG* 3.7 7.1 - - - -
800A ASN* 1.3 77.1 - - - +
802A HIS* 1.3 58.0 + - - +
804A ARG* 3.4 27.9 + - - +
805A ASP* 2.9 48.2 + - - +
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Residues in contact with HIS 802 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
798A ARG* 3.1 31.9 + - - +
799A ALA* 3.3 8.0 + - - +
801A THR* 1.3 74.5 - - - +
803A ILE* 1.3 61.7 + - - +
805A ASP* 4.0 5.1 - - - +
806A PHE* 2.9 37.2 + + + +
880A VAL* 4.2 7.8 - - + +
884A GLN* 3.2 48.9 + - + +
885A CYS* 3.4 30.4 + - - -
888A TYR* 3.6 32.3 - + + +
889A TYR* 6.0 0.7 - + - -
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Residues in contact with ILE 803 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
799A ALA* 3.2 19.6 + - + +
800A ASN* 3.7 15.7 + - - +
802A HIS* 1.3 78.4 - - - +
804A ARG* 1.3 57.6 + - - +
806A PHE* 4.0 5.4 - - + +
807A LEU* 3.0 28.9 + - - +
834A PHE* 5.5 1.4 - - + -
837A HIS* 3.3 34.5 - - + +
888A TYR* 3.5 45.1 - - + +
891A MET* 5.8 0.4 - - + -
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Residues in contact with ARG 804 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800A ASN 3.3 14.4 + - - +
801A THR* 3.5 32.3 + - - +
802A HIS 3.3 0.2 - - - -
803A ILE* 1.3 80.6 - - - +
805A ASP* 1.3 73.0 + - - +
807A LEU* 3.4 10.4 + - - +
808A GLN* 2.9 25.9 + - - +
845A ARG* 3.1 54.0 - - - +
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Residues in contact with ASP 805 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801A THR* 2.9 38.0 + - - +
802A HIS* 4.0 4.7 - - - +
804A ARG* 1.3 93.3 + - - +
806A PHE* 1.3 61.0 + - - +
808A GLN* 3.0 9.6 + - - +
809A VAL* 2.8 32.2 + - - +
879A MET* 4.8 10.7 - - + +
880A VAL* 3.7 19.1 - - + -
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Residues in contact with PHE 806 (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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598A LEU* 3.8 35.2 - - + -
600A GLN* 4.9 4.5 - - - -
603A PHE* 4.6 8.7 - - + -
604A PRO 4.2 7.6 - - - -
605A THR* 3.9 33.2 - - + -
802A HIS* 2.9 29.3 + + + +
803A ILE* 4.0 5.6 - - + +
805A ASP* 1.3 72.9 - - - +
807A LEU* 1.3 59.5 + - - +
809A VAL* 3.4 6.6 + - + +
810A PHE* 3.0 31.7 + - + +
834A PHE* 3.6 28.9 - + - -
880A VAL* 4.0 10.0 - - + +
885A CYS* 4.3 15.0 - - - -
889A TYR* 4.5 5.8 - + - -
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Residues in contact with LEU 807 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
803A ILE 3.0 18.9 + - - +
804A ARG* 3.5 7.2 - - - +
805A ASP 3.3 0.2 - - - -
806A PHE* 1.3 77.8 - - - +
808A GLN* 1.3 55.0 + - - +
810A PHE* 3.9 0.8 - - + -
811A ILE* 3.0 51.7 + - + +
830A ILE* 3.9 15.3 - - + -
834A PHE* 3.6 33.7 - - + -
837A HIS* 4.5 22.7 - - + +
841A SER* 4.3 11.0 - - - +
842A ILE* 4.7 9.9 - - + -
845A ARG* 3.7 27.6 - - + -
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Residues in contact with GLN 808 (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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804A ARG 2.9 13.2 + - - +
805A ASP* 3.0 13.9 + - - +
807A LEU* 1.3 75.3 - - - +
809A VAL* 1.3 64.9 + - + +
811A ILE* 4.0 6.8 - - - +
812A TYR* 3.2 71.3 + - + +
845A ARG* 3.3 55.1 + - - +
849A CYS* 4.7 4.6 - - - +
879A MET* 5.1 7.2 - - + -
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Residues in contact with VAL 809 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598A LEU* 4.0 24.0 - - + -
805A ASP 2.8 19.9 + - - +
806A PHE* 3.7 9.6 - - + +
808A GLN* 1.3 77.0 - - - +
810A PHE* 1.3 64.2 + - - +
812A TYR* 3.4 5.4 + - - +
813A ARG* 3.1 36.6 + - - +
876A ILE* 3.7 28.4 - - + +
879A MET* 4.0 21.5 - - + -
880A VAL* 3.8 22.9 - - + -
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Residues in contact with PHE 810 (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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600A GLN* 3.3 37.9 - - + -
605A THR* 4.2 7.9 - - + -
806A PHE* 3.0 22.0 + + + +
807A LEU* 3.4 6.0 + - - +
809A VAL* 1.3 78.3 - - + +
811A ILE* 1.3 63.3 + - + +
813A ARG* 3.6 7.8 + - + +
814A LEU* 3.2 56.1 + - + +
817A LYS* 6.3 1.1 - - - -
829A ASP 4.3 8.1 - - - -
830A ILE* 4.4 10.3 - - + -
833A ALA* 3.7 28.7 - - + -
834A PHE* 4.4 20.6 - + + -
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Residues in contact with ILE 811 (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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807A LEU* 3.0 41.0 + - + +
808A GLN* 4.0 8.5 - - - +
809A VAL 3.3 0.2 - - - -
810A PHE* 1.3 77.5 - - + +
812A TYR* 1.3 69.6 + - + +
814A LEU* 3.1 18.8 + - - +
815A PHE* 3.2 40.6 + - + -
825A ILE* 5.4 1.1 - - + +
830A ILE* 3.8 22.2 - - + -
842A ILE* 4.8 2.2 - - + -
845A ARG* 3.8 25.6 - - + +
846A LEU* 3.8 26.0 - - + -
849A CYS* 4.7 5.8 - - - -
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Residues in contact with TYR 812 (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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808A GLN* 3.2 49.6 + - + +
809A VAL* 3.4 5.6 + - - +
811A ILE* 1.3 83.4 - - + +
813A ARG* 1.3 56.7 + - - +
815A PHE* 3.1 8.9 + + - +
816A TRP* 3.1 31.8 + - - -
849A CYS* 4.6 8.6 - - + +
868A PHE* 3.5 31.8 - + - -
870A LEU* 3.7 19.5 - - + +
871A PRO* 3.7 26.4 - - + +
876A ILE* 3.9 19.1 - - + -
879A MET* 3.7 25.7 - - + +
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Residues in contact with ARG 813 (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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596A VAL 4.3 1.4 + - - -
597A GLU* 3.1 39.6 + - - +
598A LEU* 4.9 6.3 - - - +
599A ARG* 4.0 25.2 + - - +
809A VAL* 3.1 25.9 + - - +
810A PHE* 4.2 8.5 - - + +
812A TYR* 1.3 74.1 - - - +
814A LEU* 1.3 60.3 + - - +
815A PHE 3.3 0.2 - - - -
816A TRP* 3.5 10.5 + - + +
817A LYS* 3.0 28.6 + - - +
873A GLU* 2.6 46.5 + - - -
876A ILE* 3.4 37.3 - - + +
877A ARG* 4.2 6.9 - - - +
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Residues in contact with LEU 814 (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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810A PHE* 3.2 52.6 + - + +
811A ILE* 3.1 11.7 + - - +
813A ARG* 1.3 74.8 - - - +
815A PHE* 1.3 59.7 + - - +
817A LYS* 3.3 25.0 + - + +
818A SER* 3.1 21.8 + - - -
825A ILE* 3.6 27.6 - - + +
829A ASP* 4.8 19.1 - - + +
830A ILE* 3.8 24.0 - - + -
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Residues in contact with PHE 815 (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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811A ILE* 3.2 44.4 + - + -
812A TYR* 3.1 12.4 + + - +
814A LEU* 1.3 77.0 - - - +
816A TRP* 1.3 52.0 + - - +
818A SER* 3.3 10.1 + - - -
823A ARG* 2.6 49.6 + - + -
824A ARG 4.4 1.8 - - - -
825A ILE* 3.6 26.0 - - + -
846A LEU* 4.6 1.1 - - + -
849A CYS* 4.4 10.8 - - - -
850A ALA* 4.1 22.4 - - + -
862A TRP 3.8 15.3 - - - -
864A LEU* 3.6 38.6 - - + -
870A LEU* 3.7 20.9 - - + -
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Residues in contact with TRP 816 (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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812A TYR 3.1 29.0 + - - -
813A ARG* 3.8 11.7 - - + +
814A LEU 3.3 0.2 - - - -
815A PHE* 1.3 76.0 - - - +
817A LYS* 1.3 60.4 + - - +
818A SER 4.1 0.2 - - - +
823A ARG* 3.3 32.3 + - - +
870A LEU* 3.5 29.9 - - + +
871A PRO 2.9 34.7 + - - -
872A THR* 3.9 15.0 - - + -
873A GLU* 4.9 6.7 - - + -
876A ILE* 3.6 18.2 - - + +
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Residues in contact with LYS 817 (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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599A ARG* 5.1 12.7 - - - +
600A GLN* 5.4 5.9 + - - -
810A PHE* 6.3 0.6 - - - -
813A ARG 3.0 17.4 + - - +
814A LEU* 3.6 23.4 - - + +
815A PHE 3.2 0.6 - - - -
816A TRP* 1.3 76.4 - - - +
818A SER* 1.3 64.3 + - - +
819A LYS* 3.5 21.5 + - - +
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Residues in contact with SER 818 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
814A LEU 3.1 13.0 + - - -
815A PHE* 3.3 11.8 + - - -
816A TRP 4.1 0.3 - - - +
817A LYS* 1.3 76.1 - - - +
819A LYS* 1.3 62.6 + - - +
820A ASP* 3.5 13.4 + - - +
821A ARG* 3.7 3.1 + - - -
823A ARG* 2.7 31.6 + - - +
824A ARG* 3.0 41.6 + - - +
825A ILE* 4.7 0.4 - - - -
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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) + - + + + + + -
------------------------------------------------------------
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