Contacts of the helix formed by residues 754 - 784 (chain A) in PDB entry 5FLZ
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 GLU 754 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
714A ARG* 5.6 8.5 - - - +
755A ASP* 1.4 75.0 + - + +
756A ALA* 3.4 5.8 - - + +
757A ALA* 3.6 20.1 + - - +
758A LEU* 3.3 24.0 + - - +
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Residues in contact with ASP 755 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
754A GLU* 1.4 83.3 - - + +
756A ALA* 1.3 64.7 + - - +
758A LEU* 3.4 20.0 + - - +
759A GLU* 3.4 25.8 + - - +
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Residues in contact with ALA 756 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
754A GLU* 3.4 4.0 - - + +
755A ASP* 1.3 77.6 - - - +
757A ALA* 1.4 62.2 + - - +
759A GLU* 3.3 13.1 + - - +
760A LEU* 3.1 24.0 + - - +
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Residues in contact with ALA 757 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
754A GLU 3.6 22.8 + - - +
755A ASP 3.4 0.2 - - - -
756A ALA* 1.4 77.4 - - - +
758A LEU* 1.4 61.7 + - + +
760A LEU* 3.5 12.3 + - - +
761A ILE* 2.9 41.2 + - + +
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Residues in contact with LEU 758 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
623A ARG* 5.3 13.0 - - - +
625A ILE* 5.9 0.2 - - + -
754A GLU 3.3 19.1 - - - +
755A ASP* 3.6 11.4 - - - +
756A ALA 3.2 0.2 - - - -
757A ALA* 1.4 84.1 - - + +
759A GLU* 1.4 56.3 + - + +
761A ILE* 3.3 20.7 + - + +
762A GLN* 3.1 33.5 + - + +
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Residues in contact with GLU 759 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
755A ASP* 3.4 26.3 + - - +
756A ALA* 3.3 11.3 + - - +
758A LEU* 1.4 73.0 - - + +
760A LEU* 1.3 65.9 + - - +
762A GLN* 3.1 19.3 + - - +
763A LYS* 3.1 11.7 + - - +
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Residues in contact with LEU 760 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
709A PHE* 4.3 26.0 - - + -
756A ALA 3.1 13.9 + - - +
757A ALA* 3.6 10.8 - - - +
759A GLU* 1.3 80.8 - - - +
761A ILE* 1.4 49.4 - - + +
763A LYS* 3.0 52.1 + - - +
764A LEU* 3.0 33.8 + - + +
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Residues in contact with ILE 761 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
624A ARG* 4.8 0.7 - - - +
625A ILE* 2.6 50.7 - - + -
757A ALA* 2.9 31.0 + - + +
758A LEU* 3.4 19.3 - - + +
759A GLU 3.3 0.2 - - - -
760A LEU* 1.4 71.8 - - + +
762A GLN* 1.3 77.1 + - - +
764A LEU* 3.3 18.3 + - + +
765A ILE* 2.9 40.4 + - + +
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Residues in contact with GLN 762 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
624A ARG* 3.9 9.7 - - - +
758A LEU* 3.1 19.6 + - + +
759A GLU* 3.1 10.9 + - - +
761A ILE* 1.3 83.0 - - - +
763A LYS* 1.3 63.9 + - - +
765A ILE* 3.2 36.8 + - - +
766A GLU* 3.2 12.6 + - - +
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Residues in contact with LYS 763 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705A LYS* 4.1 11.5 - - - +
709A PHE* 4.1 10.7 - - - -
759A GLU 3.1 9.7 + - - +
760A LEU* 3.0 39.0 + - - +
762A GLN* 1.3 78.1 - - - +
764A LEU* 1.4 65.4 + - - +
766A GLU* 3.5 6.5 + - - +
767A TYR* 3.1 63.5 - - + +
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Residues in contact with LEU 764 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705A LYS* 5.5 1.1 - - - -
706A PHE* 5.0 22.5 - - + -
709A PHE* 3.9 42.0 - - + -
760A LEU* 3.0 36.8 + - + +
761A ILE* 3.4 20.0 - - + +
763A LYS* 1.4 85.9 - - - +
765A ILE* 1.4 51.3 + - + +
767A TYR* 3.1 16.4 + - + +
768A ILE* 2.8 38.5 + - + +
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Residues in contact with ILE 765 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
624A ARG* 3.2 41.5 - - - +
625A ILE* 4.2 4.3 - - + -
761A ILE* 2.9 26.5 + - + +
762A GLN* 3.2 23.9 + - - +
764A LEU* 1.4 70.6 - - + +
766A GLU* 1.4 68.2 + - - +
768A ILE* 3.5 17.5 - - + +
769A SER* 3.1 23.5 + - - +
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Residues in contact with GLU 766 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
762A GLN 3.2 9.6 + - - +
763A LYS* 3.5 8.5 + - - +
764A LEU 3.4 0.2 - - - -
765A ILE* 1.4 80.3 - - - +
767A TYR* 1.3 75.2 + - + +
769A SER* 2.8 23.1 + - - +
770A ASN* 2.9 51.4 + - - +
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Residues in contact with TYR 767 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A ILE* 5.2 13.4 - - + +
705A LYS* 3.6 39.2 + - - -
763A LYS* 3.1 51.8 - - + +
764A LEU* 3.1 17.0 + - + +
766A GLU* 1.3 89.6 - - + +
768A ILE* 1.3 55.5 + - + +
770A ASN* 3.3 8.8 + - - +
771A ALA* 3.0 28.4 + - - +
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Residues in contact with ILE 768 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
625A ILE 5.9 0.4 - - - +
628A ALA* 4.6 27.6 - - + +
629A THR* 5.3 1.3 - - - +
632A LEU* 4.7 14.3 - - + +
706A PHE* 3.8 36.8 - - + -
764A LEU* 2.8 22.7 + - + +
765A ILE* 3.5 20.4 - - + +
767A TYR* 1.3 74.0 - - - +
769A SER* 1.4 56.6 + - - +
771A ALA* 3.2 6.9 + - - +
772A SER* 2.7 48.7 + - - +
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Residues in contact with SER 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765A ILE* 3.1 8.7 + - - -
766A GLU* 2.8 28.1 + - - +
768A ILE* 1.4 81.6 - - - +
770A ASN* 1.4 58.9 + - - +
772A SER* 3.2 7.9 + - - -
773A SER* 2.7 36.4 + - - -
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Residues in contact with ASN 770 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A ILE* 6.5 1.1 - - + -
766A GLU* 2.9 47.9 + - - +
767A TYR* 3.5 10.4 - - - +
769A SER* 1.4 77.9 + - - +
771A ALA* 1.4 64.4 + - - +
773A SER* 3.2 16.6 + - - -
774A ILE* 3.2 17.1 + - - +
789A GLU* 4.0 3.3 - - - +
793A PHE* 3.3 42.7 - - + -
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Residues in contact with ALA 771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632A LEU* 5.0 7.6 - - + -
699A ILE* 6.1 0.7 - - + -
702A ILE* 4.7 19.5 - - + +
767A TYR 3.0 14.3 + - - +
768A ILE* 3.2 7.2 + - - +
770A ASN* 1.4 80.0 - - - +
772A SER* 1.3 58.1 + - - +
774A ILE* 3.0 17.3 - - + +
775A PHE* 2.9 49.8 - - + -
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Residues in contact with SER 772 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632A LEU* 3.5 19.2 - - - +
768A ILE* 2.7 31.8 + - - +
769A SER* 3.4 8.3 - - - -
771A ALA* 1.3 71.2 - - - +
773A SER* 1.3 63.4 + - - +
775A PHE* 3.3 11.0 + - - +
776A ARG* 3.0 23.1 + - - +
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Residues in contact with SER 773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769A SER 2.7 19.5 + - - -
770A ASN* 3.2 5.5 + - - -
772A SER* 1.3 72.7 - - - +
774A ILE* 1.4 59.4 + - - +
776A ARG* 3.2 12.9 + - - +
777A LYS 3.1 15.9 + - - -
789A GLU* 2.8 37.7 + - - +
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Residues in contact with ILE 774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698A GLN* 6.2 1.1 - - - +
699A ILE* 4.0 29.4 - - + -
702A ILE* 5.7 7.9 - - + -
770A ASN 3.2 9.4 + - - +
771A ALA* 3.0 33.0 - - + +
773A SER* 1.4 68.6 - - - +
775A PHE* 1.4 61.3 + - + +
777A LYS* 3.2 6.1 + - - +
778A CYS* 2.8 40.6 + - - -
787A SER* 3.9 0.2 + - - -
789A GLU* 3.2 27.1 - - + +
790A LYS* 3.7 36.1 - - + +
793A PHE* 5.0 9.4 - - + -
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Residues in contact with PHE 775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632A LEU* 3.9 24.2 - - + -
635A LYS* 5.8 3.4 - - + -
636A MET* 3.7 39.7 - - + -
639A PHE* 3.9 30.9 - + + -
699A ILE* 3.4 37.0 - - + -
703A VAL* 5.1 0.9 - - + -
771A ALA* 2.9 37.0 + - + +
772A SER* 3.3 6.7 + - - +
774A ILE* 1.4 86.2 - - + +
776A ARG* 1.3 58.4 + - - +
778A CYS* 3.0 24.7 + - + +
779A LEU* 3.3 18.3 + - - +
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Residues in contact with ARG 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
772A SER 3.0 12.9 + - - +
773A SER* 3.4 13.2 + - - +
774A ILE 3.2 0.2 - - - -
775A PHE* 1.3 77.2 - - - +
777A LYS* 1.4 61.6 + - - +
779A LEU* 3.4 31.0 + - + +
780A ILE* 3.9 11.6 - - - +
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Residues in contact with LYS 777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
773A SER 3.1 9.1 + - - +
774A ILE 3.4 4.9 - - - +
776A ARG* 1.4 76.1 - - - +
778A CYS* 1.3 61.4 + - - +
779A LEU 3.2 0.9 + - - -
780A ILE* 3.2 46.1 + - + +
781A ASN* 3.0 6.1 + - - +
784A GLN 5.4 0.8 + - - -
785A GLU 5.2 0.6 + - - -
786A LEU* 3.4 19.4 + - - +
787A SER* 3.3 23.8 - - - +
788A THR* 3.8 29.2 - - + +
789A GLU* 3.9 26.0 - - + +
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Residues in contact with CYS 778 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
639A PHE* 5.8 5.4 - - + -
699A ILE* 4.8 4.5 - - - -
774A ILE* 2.8 29.0 + - - +
775A PHE* 3.0 15.2 + - + +
777A LYS* 1.3 72.6 - - - +
779A LEU* 1.3 60.7 + - - +
781A ASN* 3.2 28.2 + - - +
782A PHE* 3.7 4.2 + - - +
787A SER* 3.8 4.9 - - - -
790A LYS* 3.4 45.1 - - - +
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Residues in contact with LEU 779 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
639A PHE* 3.8 21.8 - - + -
775A PHE 3.3 13.8 + - - +
776A ARG* 3.5 25.6 - - + +
777A LYS 3.2 0.8 - - - -
778A CYS* 1.3 74.3 - - - +
780A ILE* 1.4 62.6 + - + +
782A PHE* 3.5 21.0 + - - +
783A THR* 3.9 6.4 + - - -
352C MET* 3.5 37.7 - - + -
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Residues in contact with ILE 780 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
776A ARG* 3.9 13.0 - - - +
777A LYS* 3.3 49.1 - - + +
778A CYS 3.2 0.2 - - - -
779A LEU* 1.4 75.3 - - + +
781A ASN* 1.3 55.8 + - - +
783A THR* 3.3 12.0 + - + -
784A GLN* 3.0 29.4 + - + +
----------------------------------------------------------
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Residues in contact with ASN 781 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
777A LYS* 3.0 17.3 - - - +
778A CYS* 3.2 17.3 + - - +
780A ILE* 1.3 72.0 - - - +
782A PHE* 1.4 62.7 + - - +
784A GLN 2.9 12.1 - - - -
785A GLU* 2.9 25.0 + - - -
786A LEU* 3.0 30.8 - - - +
787A SER* 3.1 31.3 - - - +
790A LYS* 4.3 11.3 - - - +
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Residues in contact with PHE 782 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
642A THR* 4.8 17.7 - - + -
646A TYR* 4.0 45.8 - + - -
778A CYS 3.7 3.6 + - - +
779A LEU* 3.5 14.3 + - - +
780A ILE 3.4 0.6 - - - -
781A ASN* 1.4 76.1 - - - +
783A THR* 1.4 64.3 + - - +
333C ARG* 4.9 7.4 - - - -
337C LYS* 4.1 28.3 - - + -
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Residues in contact with THR 783 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
779A LEU 3.9 5.5 + - - -
780A ILE* 3.3 13.3 + - + +
782A PHE* 1.4 80.8 - - - +
784A GLN* 1.4 73.1 + - + +
337C LYS* 4.4 16.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 784 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
777A LYS* 5.4 0.3 + - - -
780A ILE* 3.0 17.5 + - + +
781A ASN* 2.9 14.0 + - - -
783A THR* 1.4 85.5 - - + +
785A GLU* 1.4 100.8 + - - +
786A LEU 4.4 0.7 - - - +
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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