Contacts of the helix formed by residues 629 - 661 (chain C) in PDB entry 3A8P
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 ASP 629 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
627C LYS* 4.7 3.0 - - + +
628C GLU* 1.3 75.9 - - - +
630C THR* 1.3 65.2 + - - +
631C VAL* 3.6 8.5 + - - +
632C ARG* 2.9 66.4 + - + +
633C LEU* 3.1 12.9 + - - +
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Residues in contact with THR 630 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
618C ALA* 3.7 31.0 - - + +
619C SER* 4.3 7.4 - - - +
622C ALA* 3.7 20.4 - - + +
628C GLU 2.7 17.2 + - - -
629C ASP* 1.3 70.1 - - - +
631C VAL* 1.3 64.5 + - - +
633C LEU* 3.1 6.3 + - - +
634C LEU* 3.0 27.0 + - + +
699C LEU* 3.5 27.1 - - + -
----------------------------------------------------------
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Residues in contact with VAL 631 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
629C ASP* 3.3 7.0 + - - +
630C THR* 1.3 75.8 - - - +
632C ARG* 1.3 63.2 + - - +
634C LEU* 3.4 4.2 + - - +
635C LYS* 3.0 34.8 + - + +
696C LEU* 4.0 13.9 - - + -
699C LEU* 4.1 26.7 - - + +
700C GLN* 3.6 32.3 - - + +
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Residues in contact with ARG 632 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
627C LYS* 6.3 4.3 - - - +
629C ASP* 2.9 42.5 + - - +
631C VAL* 1.3 77.7 - - - +
633C LEU* 1.3 62.4 + - - +
635C LYS* 3.4 10.0 + - - +
636C SER* 2.9 31.6 + - - +
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Residues in contact with LEU 633 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
621C PHE* 3.9 14.4 - - + -
622C ALA* 3.5 34.8 - - + -
625C HIS* 3.6 32.5 - - + +
627C LYS* 4.0 32.5 - - + +
629C ASP 3.1 8.4 + - - +
630C THR* 3.1 9.7 + - - +
632C ARG* 1.3 78.7 - - - +
634C LEU* 1.3 64.8 + - + +
636C SER* 3.0 20.3 + - - -
637C GLN* 3.0 24.5 + - + +
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Residues in contact with LEU 634 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
618C ALA* 4.3 2.2 - - + -
621C PHE* 4.2 13.2 - - + -
630C THR* 3.0 21.1 + - + +
631C VAL 3.4 2.4 + - - +
633C LEU* 1.3 75.5 - - + +
635C LYS* 1.3 56.6 + - - +
637C GLN* 3.4 8.0 + - - +
638C THR* 3.0 31.2 + - - -
692C MET* 3.6 29.3 - - - +
695C TYR* 3.8 34.8 - - + -
696C LEU* 3.6 31.9 - - + +
699C LEU* 3.7 30.5 - - + -
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Residues in contact with LYS 635 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
631C VAL* 3.0 35.3 + - + +
632C ARG* 3.6 8.5 - - - +
633C LEU 3.1 0.2 - - - -
634C LEU* 1.3 75.8 - - - +
636C SER* 1.3 64.2 + - - +
638C THR* 3.2 9.4 + - - -
639C ARG* 3.1 39.3 + - - +
696C LEU* 4.3 15.5 - - + +
700C GLN* 4.3 11.7 + - - +
----------------------------------------------------------
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Residues in contact with SER 636 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632C ARG* 2.9 20.5 + - - +
633C LEU* 3.0 14.5 + - - -
635C LYS* 1.3 73.2 - - - +
637C GLN* 1.3 65.8 + - - +
639C ARG* 3.2 30.3 + - - +
640C SER* 2.9 25.3 + - - -
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Residues in contact with GLN 637 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
621C PHE* 4.0 27.0 - - + -
625C HIS* 3.9 23.7 + - - -
633C LEU* 3.0 24.5 + - + +
634C LEU 3.5 8.3 - - - +
636C SER* 1.3 77.4 - - - +
638C THR* 1.3 52.3 + - - +
640C SER* 3.2 8.5 + - - -
641C LEU* 2.7 53.2 + - + +
692C MET* 3.8 16.9 - - + -
----------------------------------------------------------
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Residues in contact with THR 638 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634C LEU 3.0 15.0 + - - -
635C LYS* 3.2 11.4 + - - -
637C GLN* 1.3 76.6 - - - +
639C ARG* 1.3 58.8 + - + +
641C LEU* 3.3 1.8 + - - +
642C LEU* 2.8 48.7 + - + +
689C LEU* 3.6 25.5 - - + +
692C MET* 3.9 13.7 - - - +
693C ARG* 4.5 12.3 - - + +
696C LEU* 3.9 13.2 - - + +
----------------------------------------------------------
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Residues in contact with ARG 639 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632C ARG 5.1 0.2 + - - -
635C LYS* 3.1 33.1 + - - +
636C SER* 3.2 34.6 + - - +
637C GLN 3.3 0.2 - - - -
638C THR* 1.3 76.6 - - + +
640C SER* 1.3 63.1 + - - +
642C LEU* 3.2 10.9 + - + +
643C GLN* 3.1 35.3 + - - +
----------------------------------------------------------
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Residues in contact with SER 640 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
636C SER 2.9 18.2 + - - -
637C GLN* 3.5 12.3 + - - -
639C ARG* 1.3 77.3 - - - +
641C LEU* 1.3 63.3 + - - +
643C GLN* 3.3 14.1 + - - +
644C LYS* 3.1 43.1 + - - +
----------------------------------------------------------
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Residues in contact with LEU 641 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
637C GLN* 2.7 36.3 + - + +
638C THR 3.6 4.7 - - - +
640C SER* 1.3 70.6 - - - +
642C LEU* 1.3 60.4 + - - +
644C LYS* 3.2 9.2 + - + +
645C ILE* 2.9 36.0 + - - +
685C PHE* 4.0 35.6 - - + +
688C ASP* 3.8 19.1 - - + +
689C LEU* 3.6 40.4 - - + +
692C MET* 3.9 16.6 - - + -
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Residues in contact with LEU 642 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
638C THR* 2.8 38.3 + - + +
639C ARG* 3.2 9.8 + - + +
641C LEU* 1.3 75.0 - - - +
643C GLN* 1.3 59.2 + - + +
645C ILE* 3.6 7.5 - - + +
646C ASP* 3.0 28.4 + - - +
689C LEU* 3.3 40.6 - - + -
693C ARG* 4.1 12.6 - - - +
----------------------------------------------------------
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Residues in contact with GLN 643 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
639C ARG* 3.1 22.1 + - + +
640C SER* 3.7 13.0 - - - +
641C LEU 3.2 0.2 - - - -
642C LEU* 1.3 77.8 - - + +
644C LYS* 1.3 61.4 + - + +
646C ASP* 3.6 6.6 + - - +
647C MET* 3.1 30.8 + - - +
----------------------------------------------------------
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Residues in contact with LYS 644 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
640C SER* 3.1 31.1 + - - +
641C LEU* 3.7 11.5 - - + +
643C GLN* 1.3 75.0 - - + +
645C ILE* 1.3 61.6 + - - +
647C MET* 3.4 4.6 + - - +
648C ASP* 3.0 36.0 + - - +
685C PHE* 3.7 39.9 - - + -
----------------------------------------------------------
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Residues in contact with ILE 645 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
641C LEU 2.9 27.4 + - - +
642C LEU* 3.6 7.6 - - + +
644C LYS* 1.3 74.3 - - - +
646C ASP* 1.3 58.5 + - - +
648C ASP 3.4 0.3 + - - -
649C SER* 2.7 46.9 + - - +
682C LEU* 3.6 10.2 - - + +
685C PHE* 3.4 33.0 - - + +
686C HIS* 3.8 37.5 - - + +
689C LEU* 3.9 27.1 - - + -
----------------------------------------------------------
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Residues in contact with ASP 646 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
642C LEU 3.0 17.4 + - - +
643C GLN* 3.8 7.2 - - - +
644C LYS 3.4 0.2 - - - -
645C ILE* 1.3 77.6 - - - +
647C MET* 1.3 68.2 + - + +
649C SER* 3.6 6.6 - - - -
650C LYS* 2.6 54.4 + - - +
----------------------------------------------------------
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Residues in contact with MET 647 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
643C GLN 3.1 19.8 + - - +
644C LYS* 3.5 7.4 - - - +
646C ASP* 1.3 84.3 - - - +
648C ASP* 1.3 69.3 + - - +
650C LYS* 3.2 35.3 + - + +
651C MET* 3.3 20.1 + - + +
----------------------------------------------------------
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Residues in contact with ASP 648 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
644C LYS* 3.0 19.1 + - - +
647C MET* 1.3 79.0 - - - +
649C SER* 1.3 59.5 + - - +
651C MET* 3.3 4.9 + - - +
652C LYS* 2.8 31.0 + - - +
678C TRP* 3.6 25.8 - - + -
681C ASN* 3.4 22.3 + - - +
682C LEU* 3.9 21.4 - - + +
685C PHE* 3.2 22.9 - - - -
----------------------------------------------------------
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Residues in contact with SER 649 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
645C ILE* 2.7 32.6 + - - +
646C ASP* 3.6 8.7 - - - -
648C ASP* 1.3 74.9 - - - +
650C LYS* 1.3 58.3 + - - +
652C LYS* 3.5 2.7 - - - +
653C LYS* 2.8 33.0 + - - +
682C LEU* 3.7 20.6 - - - +
686C HIS* 5.5 0.9 + - - -
----------------------------------------------------------
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Residues in contact with LYS 650 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646C ASP* 2.6 50.4 + - - +
647C MET* 3.4 25.0 - - + +
648C ASP 3.2 0.2 - - - -
649C SER* 1.3 79.3 - - - +
651C MET* 1.3 63.4 + - + +
653C LYS* 3.1 8.6 + - - +
654C MET* 3.0 39.6 + - + +
----------------------------------------------------------
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Residues in contact with MET 651 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
647C MET* 3.3 18.1 + - + +
648C ASP* 3.3 6.3 + - - +
650C LYS* 1.3 79.0 - - - +
652C LYS* 1.3 64.0 + - - +
654C MET* 3.4 25.2 + - + +
655C ALA* 3.0 23.4 + - - +
674C GLN* 5.1 5.5 - - - +
678C TRP* 3.5 46.4 + - + +
----------------------------------------------------------
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Residues in contact with LYS 652 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648C ASP 2.8 17.7 + - - +
649C SER* 3.5 5.4 - - - +
651C MET* 1.3 77.6 - - - +
653C LYS* 1.3 60.8 + - - +
655C ALA* 3.2 4.0 + - - +
656C GLU* 2.8 53.7 + - - +
675C ILE* 4.9 5.6 - - + -
678C TRP* 3.8 25.5 - - + -
679C GLU* 3.6 35.0 + - + +
682C LEU* 3.4 25.8 - - + -
----------------------------------------------------------
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Residues in contact with LYS 653 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649C SER 2.8 20.5 + - - +
650C LYS* 3.4 9.0 - - - +
652C LYS* 1.3 74.2 - - - +
654C MET* 1.3 63.4 + - + +
656C GLU* 2.9 26.1 + - + +
657C LEU* 2.9 17.9 - - + +
----------------------------------------------------------
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Residues in contact with MET 654 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
650C LYS* 3.0 33.4 + - + +
651C MET* 3.7 34.1 - - + +
653C LYS* 1.3 76.0 - - + +
655C ALA* 1.3 63.4 + - - +
656C GLU 3.1 1.0 + - - -
657C LEU* 3.2 24.7 + - + +
658C GLN* 3.6 13.5 + - - +
----------------------------------------------------------
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Residues in contact with ALA 655 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
651C MET 3.0 14.8 + - - +
652C LYS* 3.4 7.9 - - - +
653C LYS 3.2 0.2 - - - -
654C MET* 1.3 75.3 - - - +
656C GLU* 1.3 63.0 + - - +
658C GLN* 3.9 7.7 + - - +
659C LEU* 3.4 17.5 + - - +
671C ILE* 3.9 5.5 - - + +
674C GLN* 3.9 26.9 - - - +
675C ILE* 3.2 30.3 - - + +
678C TRP* 4.4 2.7 - - + -
----------------------------------------------------------
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Residues in contact with GLU 656 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
652C LYS* 2.8 48.4 + - - +
653C LYS* 2.9 22.9 + - + +
655C ALA* 1.3 75.1 - - - +
657C LEU* 1.3 72.0 + - + +
659C LEU* 3.3 8.7 + - - +
660C SER* 3.2 16.8 + - - -
675C ILE* 3.3 22.7 - - - +
679C GLU* 5.4 0.3 - - - +
----------------------------------------------------------
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Residues in contact with LEU 657 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
653C LYS* 2.9 33.0 - - + +
654C MET* 3.2 19.1 - - + +
656C GLU* 1.3 79.5 - - + +
658C GLN* 1.3 62.1 + - - +
660C SER* 2.5 40.5 + - - +
661C VAL* 3.1 11.0 + - + +
----------------------------------------------------------
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Residues in contact with GLN 658 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
654C MET 3.6 11.0 + - - +
655C ALA* 4.2 9.9 - - - +
656C GLU 3.5 0.4 - - - -
657C LEU* 1.3 80.5 - - - +
659C LEU* 1.3 62.4 + - - +
661C VAL* 3.0 19.7 + - - +
662C VAL* 2.8 38.1 - - - +
671C ILE* 4.2 16.5 - - + +
----------------------------------------------------------
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Residues in contact with LEU 659 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
655C ALA 3.4 11.9 + - - +
656C GLU* 3.3 13.1 + - - +
657C LEU 3.1 0.6 - - - -
658C GLN* 1.3 78.9 - - - +
660C SER* 1.3 62.5 + - - +
661C VAL 3.3 0.9 + - - -
662C VAL 3.7 1.0 + - - -
668C ARG* 2.8 77.9 + - - +
671C ILE* 3.7 23.0 - - + +
672C GLU* 3.7 25.8 - - - +
675C ILE* 5.2 6.5 - - + -
----------------------------------------------------------
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Residues in contact with SER 660 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656C GLU 3.2 7.0 + - - -
657C LEU* 2.5 34.4 + - - +
659C LEU* 1.3 76.2 - - - +
661C VAL* 1.3 66.6 + - - +
662C VAL 3.7 0.7 - - - -
668C ARG* 4.8 3.1 - - - +
----------------------------------------------------------
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Residues in contact with VAL 661 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
657C LEU* 3.5 14.8 - - + +
658C GLN* 3.0 24.7 + - - +
660C SER* 1.3 93.3 - - - +
662C VAL* 1.3 59.4 + - - +
----------------------------------------------------------
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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