Contacts of the helix formed by residues 725 - 751 (chain A) in PDB entry 4FUL
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 GLY 725 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
316A ASP* 3.3 23.6 - - - -
317A GLU 3.6 4.5 - - - -
318A VAL* 4.2 5.6 - - - +
721A LEU 5.1 0.6 + - - -
723A GLY* 3.2 3.8 - - - +
724A CYS* 1.3 82.3 - - - +
726A THR* 1.4 59.9 + - - -
727A ALA 3.5 2.7 - - - -
728A MET 3.7 1.2 + - - -
729A LEU* 3.1 35.5 + - - +
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Residues in contact with THR 726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A LEU 3.6 11.7 + - - +
317A GLU* 2.8 29.9 + - - +
319A ARG* 5.1 5.0 + - - +
725A GLY* 1.4 68.8 - - - -
727A ALA* 1.3 66.8 + - - +
729A LEU* 3.4 12.7 + - + +
730A HIS* 3.1 23.7 + - + +
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Residues in contact with ALA 727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A LEU* 2.9 33.0 + - + +
316A ASP* 3.9 16.4 - - - +
689A LYS* 4.6 5.8 - - - +
725A GLY 3.5 0.8 - - - -
726A THR* 1.3 73.7 - - - +
728A MET* 1.4 53.8 + - - +
730A HIS* 3.2 14.9 + - + -
731A ASP* 2.8 41.0 + - - +
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Residues in contact with MET 728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196A TYR* 3.6 12.1 - - - -
316A ASP* 5.2 0.6 + - - +
689A LYS* 3.5 66.4 - - + +
693A HIS* 4.3 5.4 - - + +
720A TYR* 3.5 24.7 - - - +
724A CYS* 4.0 16.2 - - - +
725A GLY 3.7 7.1 + - - +
726A THR 3.4 0.4 - - - -
727A ALA* 1.4 71.2 - - - +
729A LEU* 1.3 60.2 + - - +
731A ASP* 3.4 15.5 - - + +
732A PHE* 2.9 55.6 + - + -
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Residues in contact with LEU 729 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150A PHE* 3.8 31.2 - - + -
153A GLN* 4.6 11.4 - - + +
154A LEU* 4.9 3.4 - - + -
157A LEU* 3.7 24.9 - - + +
721A LEU* 3.4 34.5 - - + +
724A CYS* 3.7 11.4 - - - -
725A GLY 3.1 29.4 + - - +
726A THR* 3.6 12.6 - - + +
727A ALA 3.3 0.4 - - - -
728A MET* 1.3 76.1 - - - +
730A HIS* 1.4 49.8 + - - +
732A PHE* 3.7 3.9 + - - +
733A THR* 2.7 37.2 + - - -
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Residues in contact with HIS 730 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A GLN* 5.5 1.3 - - - +
726A THR* 3.1 14.3 + - + +
727A ALA* 3.3 12.8 - - + +
729A LEU* 1.4 72.2 - - - +
731A ASP* 1.4 92.9 + - - +
733A THR* 3.4 7.6 + - - -
734A GLN* 3.1 55.1 + - + +
792A LYS* 5.5 4.6 + - - -
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Residues in contact with ASP 731 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
689A LYS* 5.7 1.6 + - - -
727A ALA* 2.8 19.7 + - - +
728A MET* 3.1 22.5 + - + +
730A HIS* 1.4 94.7 + - - +
732A PHE* 1.4 63.1 + - + +
734A GLN* 3.2 16.3 + - - +
735A GLN* 3.2 30.0 + - - +
783A PHE* 5.7 0.2 - - - -
784A ARG* 3.5 31.2 + - + -
792A LYS* 4.5 7.8 + - - -
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Residues in contact with PHE 732 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A LEU* 3.7 16.8 - - + -
693A HIS* 4.0 25.1 - - - -
696A PHE* 3.6 46.4 - + + -
697A TRP* 4.8 0.2 - - - -
720A TYR* 3.6 28.0 - + - -
721A LEU* 4.0 17.0 - - + -
724A CYS* 4.3 1.8 - - - -
728A MET* 2.9 53.2 + - + +
729A LEU* 4.0 3.4 - - - +
731A ASP* 1.4 73.4 - - + +
733A THR* 1.4 55.4 + - - +
735A GLN* 3.1 16.9 + - - +
736A VAL* 2.8 38.9 + - - +
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Residues in contact with THR 733 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153A GLN* 3.3 32.5 + - - +
157A LEU* 3.5 13.8 - - + +
729A LEU 2.7 24.2 + - - -
730A HIS* 3.5 9.4 - - - -
731A ASP 3.4 0.2 - - - -
732A PHE* 1.4 72.8 - - - +
734A GLN* 1.3 58.7 + - + +
736A VAL* 3.9 2.6 - - - +
737A GLN* 3.0 57.5 + - + +
----------------------------------------------------------
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Residues in contact with GLN 734 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A HIS* 3.1 38.8 + - + +
731A ASP* 3.2 8.9 + - - +
733A THR* 1.3 77.0 - - + +
735A GLN* 1.3 63.1 + - - +
737A GLN* 4.0 11.4 - - - +
738A VAL* 3.4 28.4 + - - +
780A PRO* 3.2 26.5 - - + +
781A GLU* 4.4 9.7 + - - +
782A SER* 2.8 39.7 + - - +
783A PHE* 3.9 6.8 - - + +
792A LYS* 6.2 0.2 - - - +
----------------------------------------------------------
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Residues in contact with GLN 735 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
693A HIS* 3.4 13.0 + - - -
697A TRP* 3.1 38.9 + - + -
731A ASP* 3.2 32.1 + - - +
732A PHE* 3.1 15.7 + - - +
734A GLN* 1.3 72.9 - - - +
736A VAL* 1.3 60.3 + - - +
738A VAL* 3.5 2.7 + - - +
739A ILE* 2.9 36.5 + - - +
783A PHE* 4.4 7.6 - - + -
784A ARG* 3.4 49.6 - - - +
786A PRO* 4.1 5.7 - - + +
----------------------------------------------------------
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Residues in contact with VAL 736 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ALA* 3.7 11.4 - - + +
157A LEU* 3.9 10.1 - - + -
696A PHE* 3.9 30.1 - - + -
697A TRP* 4.3 5.6 - - + -
700A ARG* 3.4 34.5 - - - +
732A PHE 2.8 21.0 + - - +
733A THR* 4.0 3.8 - - - +
735A GLN* 1.3 78.0 - - - +
737A GLN* 1.3 56.4 + - + +
739A ILE* 3.6 6.1 - - - +
740A GLU* 2.9 45.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 737 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
733A THR* 3.0 40.4 + - + +
734A GLN* 4.0 15.4 - - - +
735A GLN 3.3 0.2 - - - -
736A VAL* 1.3 75.8 - - + +
738A VAL* 1.3 57.5 + - - +
740A GLU* 3.5 5.7 - - - +
741A MET* 3.0 53.9 + - + +
778A GLN 5.6 0.2 - - - +
780A PRO* 4.0 20.2 - - + +
----------------------------------------------------------
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Residues in contact with VAL 738 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734A GLN 3.4 17.6 + - - +
735A GLN 3.9 3.4 - - - +
736A VAL 3.4 0.2 - - - -
737A GLN* 1.3 72.1 - - - +
739A ILE* 1.4 63.6 + - + +
741A MET* 3.2 8.7 + - - +
742A LEU* 2.9 54.4 + - + +
779A LEU* 4.4 13.5 - - + -
780A PRO* 3.6 25.8 - - + +
783A PHE* 3.6 47.6 - - + -
815A PHE* 5.1 0.2 - - + -
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Residues in contact with ILE 739 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697A TRP* 4.1 17.7 - - + -
700A ARG* 4.2 14.8 - - - +
735A GLN 2.9 28.8 + - - +
736A VAL* 3.6 10.8 - - - +
738A VAL* 1.4 73.6 - - + +
740A GLU* 1.3 67.1 + - - +
742A LEU* 3.2 1.4 + - - +
743A GLN* 2.9 60.1 + - - +
783A PHE* 6.2 1.6 - - + -
786A PRO* 4.6 5.6 - - + -
832A PHE* 3.9 17.4 - - + -
872A THR* 3.9 18.6 - - + +
878A MET* 4.1 28.3 - - + -
----------------------------------------------------------
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Residues in contact with GLU 740 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
156A ALA* 4.4 3.5 - - - +
700A ARG* 3.6 14.8 + - - -
736A VAL* 2.9 38.5 + - + +
737A GLN* 3.5 7.4 - - - +
739A ILE* 1.3 85.8 - - - +
741A MET* 1.3 61.6 + - + +
743A GLN* 3.5 22.2 + - - +
744A LYS* 3.4 36.1 + - - +
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Residues in contact with MET 741 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737A GLN* 3.0 43.4 + - + +
738A VAL* 3.2 6.3 + - - +
740A GLU* 1.3 78.5 - - + +
742A LEU* 1.4 58.1 + - - +
744A LYS* 3.8 6.9 + - - +
745A VAL* 3.3 27.0 + - - +
774A LEU* 3.8 26.4 - - + +
778A GLN* 3.4 66.0 - - + +
779A LEU* 4.1 8.1 - - + -
780A PRO* 4.7 2.2 - - + -
----------------------------------------------------------
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Residues in contact with LEU 742 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
738A VAL* 2.9 39.2 + - + +
739A ILE 3.9 0.7 - - - +
741A MET* 1.4 73.5 - - - +
743A GLN* 1.4 52.9 + - - +
744A LYS 3.3 0.4 - - - -
745A VAL* 3.4 5.8 + - + +
746A THR* 2.7 40.5 + - - -
771A LEU* 4.4 11.9 - - + -
774A LEU* 4.0 20.4 - - + -
779A LEU* 4.9 8.3 - - + -
783A PHE* 5.5 0.4 - - + -
796A LEU* 4.9 3.4 - - + -
811A LEU* 4.4 1.5 - - + +
813A LEU* 3.8 24.9 - - + -
815A PHE* 4.1 12.8 - - + -
830A ILE* 6.2 0.9 - - + -
832A PHE* 3.6 39.5 - - + -
878A MET* 6.0 0.4 - - + -
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Residues in contact with GLN 743 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
700A ARG* 5.9 0.2 - - - +
739A ILE* 2.9 30.2 + - - +
740A GLU* 3.5 28.7 + - - +
742A LEU* 1.4 72.1 - - - +
744A LYS* 1.4 62.0 + - + +
746A THR* 3.3 4.9 + - - -
747A LEU* 3.0 38.0 + - + +
832A PHE* 3.7 13.0 - - + -
872A THR* 2.7 39.7 + - - +
873A GLY* 4.9 0.2 - - - -
876A ILE* 3.7 29.9 - - + +
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Residues in contact with LYS 744 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
740A GLU* 3.4 25.0 + - - +
741A MET* 4.0 8.7 - - - +
742A LEU 3.3 0.4 - - - -
743A GLN* 1.4 74.6 - - + +
745A VAL* 1.4 65.2 + - + +
747A LEU* 3.2 12.3 + - + +
748A ASP* 3.0 38.2 + - - +
----------------------------------------------------------
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Residues in contact with VAL 745 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741A MET 3.3 17.4 + - - +
742A LEU* 3.4 9.0 + - - +
744A LYS* 1.4 74.5 - - + +
746A THR* 1.4 62.7 + - - +
748A ASP* 3.4 6.9 + - - -
749A ILE* 3.1 41.9 + - + +
767A LEU* 3.9 9.6 - - + -
770A LYS* 4.2 21.5 - - + +
771A LEU* 4.5 9.4 - - + -
774A LEU* 3.9 27.8 - - + -
811A LEU* 3.8 17.9 - - + -
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Residues in contact with THR 746 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742A LEU 2.7 28.2 + - - -
743A GLN* 3.4 9.2 - - - -
745A VAL* 1.4 74.1 - - - +
747A LEU* 1.3 56.1 + - - +
749A ILE* 3.6 3.6 + - - +
750A LYS* 3.1 28.7 + - + +
809A LYS 5.2 5.8 - - - +
811A LEU* 3.6 17.7 - - + +
832A PHE* 3.4 39.2 - - - +
833A LYS 4.0 3.6 - - - -
834A HIS* 4.0 28.0 - - + +
876A ILE* 4.4 6.1 - - + -
----------------------------------------------------------
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Residues in contact with LEU 747 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743A GLN* 3.0 25.9 + - + +
744A LYS* 3.8 11.7 - - + +
746A THR* 1.3 73.2 - - - +
748A ASP* 1.4 62.5 + - - +
750A LYS* 3.3 8.4 + - + +
751A SER* 2.9 30.9 + - - -
834A HIS* 3.4 42.8 - - + +
876A ILE* 4.3 11.2 - - + -
----------------------------------------------------------
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Residues in contact with ASP 748 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
744A LYS* 3.0 28.4 + - - +
745A VAL* 3.9 5.9 - - - +
747A LEU* 1.4 75.4 - - - +
749A ILE* 1.4 69.7 + - + +
751A SER* 3.2 25.4 + - - -
752A LEU* 3.4 13.2 - - + +
770A LYS* 4.2 20.1 - - + +
----------------------------------------------------------
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Residues in contact with ILE 749 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745A VAL* 3.1 42.4 + - + +
746A THR 4.0 2.2 - - - +
748A ASP* 1.4 75.0 - - + +
750A LYS* 1.4 63.5 + - - +
752A LEU* 3.0 29.7 + - + +
753A SER* 3.4 10.2 + - - -
763A VAL* 4.0 13.9 - - + -
766A GLN* 4.4 3.4 - - + +
767A LEU* 4.1 34.3 - - + +
770A LYS* 4.3 15.0 - - + -
803A VAL* 3.9 24.0 - - + -
809A LYS* 4.4 7.2 - - + +
811A LEU* 3.9 20.9 - - + -
----------------------------------------------------------
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Residues in contact with LYS 750 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
746A THR* 3.1 17.4 + - + +
747A LEU* 3.4 15.3 - - + +
749A ILE* 1.4 76.5 - - - +
751A SER* 1.4 56.5 + - - +
752A LEU 3.2 1.2 + - - -
753A SER 2.9 27.2 - - - +
807A LYS 5.3 2.0 - - - +
808A LYS* 3.6 20.9 - - - +
809A LYS* 3.9 28.1 - - + +
834A HIS* 2.7 61.1 + - + +
835A GLY* 4.0 3.2 - - - +
----------------------------------------------------------
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Residues in contact with SER 751 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
747A LEU 2.9 17.1 + - - -
748A ASP* 3.4 13.9 - - - -
749A ILE 3.2 0.6 - - - -
750A LYS* 1.4 73.9 - - - +
752A LEU* 1.4 64.4 + - - +
753A SER 3.8 0.2 - - - -
----------------------------------------------------------
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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) + - + + + + + -
------------------------------------------------------------
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