Contacts of the helix formed by residues 588 - 617 (chain C) in PDB entry 3H52
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 HIS 588 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586C ASN 3.9 0.2 + - - -
587C LEU* 1.3 73.2 - - - +
589C LEU* 1.3 64.3 + - + +
590C ASP* 3.9 31.2 + - + -
591C ASP* 2.8 37.6 + - - +
592C GLN 2.9 10.4 + - - -
681C LYS* 3.2 27.6 - - + +
682C SER* 3.2 13.3 + - - +
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Residues in contact with LEU 589 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
579C LYS* 4.4 11.9 - - - +
587C LEU 3.2 2.0 + - - -
588C HIS* 1.3 75.6 + - + +
590C ASP* 1.3 61.4 + - - +
592C GLN* 3.1 35.2 + - + +
593C MET* 3.1 24.6 + - - +
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Residues in contact with ASP 590 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588C HIS* 3.2 25.0 + - + -
589C LEU* 1.3 79.2 - - - +
591C ASP* 1.3 58.3 + - - +
593C MET* 3.6 16.1 + - + +
594C THR* 2.6 37.7 + - - +
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Residues in contact with ASP 591 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587C LEU* 4.2 11.5 - - + +
588C HIS* 2.8 25.4 + - + +
590C ASP* 1.3 77.7 - - - +
592C GLN* 1.3 57.3 + - - +
594C THR* 3.1 2.6 + - - -
595C LEU* 2.7 40.4 + - + +
680C LEU* 3.3 30.4 - - + +
681C LYS* 3.0 19.4 + - - +
682C SER* 2.8 34.7 + - - -
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Residues in contact with GLN 592 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
579C LYS* 3.3 34.2 + - + +
584C PHE* 3.5 42.8 - - + +
585C ARG* 3.2 22.8 + - - +
587C LEU* 2.8 25.0 + - + +
588C HIS 2.9 10.3 + - - +
589C LEU* 3.1 33.1 - - + +
591C ASP* 1.3 77.2 - - - +
593C MET* 1.3 60.0 + - - +
595C LEU* 5.2 0.2 - - - -
596C LEU* 3.3 33.4 + - + +
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Residues in contact with MET 593 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589C LEU 3.1 13.4 + - - +
590C ASP* 3.7 18.4 - - + +
591C ASP 3.2 0.2 - - - -
592C GLN* 1.3 78.0 - - - +
594C THR* 1.3 65.8 + - - +
596C LEU* 3.4 9.0 + - - +
597C GLN* 2.9 65.1 + - + +
757C ILE* 6.5 0.9 - - + -
760C GLN* 4.9 20.0 - - + +
761C ILE* 5.1 7.9 - - + -
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Residues in contact with THR 594 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590C ASP* 2.6 24.4 + - - +
591C ASP* 3.1 7.7 + - - -
593C MET* 1.3 81.4 - - - +
595C LEU* 1.3 60.7 + - + +
597C GLN* 3.1 12.4 + - - +
598C TYR* 2.9 64.8 + - + +
676C PRO* 3.9 16.7 - - + +
680C LEU* 4.9 3.1 - - + -
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Residues in contact with LEU 595 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584C PHE* 3.8 19.5 - - + -
587C LEU* 3.6 29.8 - - + -
591C ASP 2.7 19.0 + - - +
594C THR* 1.3 73.0 - - + +
596C LEU* 1.3 64.8 + - - +
597C GLN 3.1 1.0 + - - -
598C TYR* 3.4 2.9 + - - +
599C SER* 2.8 31.8 + - - -
671C LEU* 4.0 17.9 - - + +
672C LEU* 4.3 3.8 - - + -
674C SER 3.9 20.0 - - - +
675C VAL* 4.9 1.6 - - + -
680C LEU* 3.9 30.5 - - + -
686C PHE* 3.9 23.6 - - + -
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Residues in contact with LEU 596 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574C ALA* 4.3 6.5 - - + +
575C VAL* 3.5 56.1 - - + +
578C ALA* 3.8 17.3 - - + -
579C LYS* 5.4 2.9 - - + -
584C PHE* 4.2 14.4 - - + -
592C GLN* 3.3 23.3 + - + +
593C MET* 3.6 6.3 - - - +
595C LEU* 1.3 79.0 - - - +
597C GLN* 1.3 60.0 + - - +
599C SER* 4.1 3.1 - - - -
600C TRP* 3.2 19.3 + - + +
603C LEU* 5.1 4.3 - - + -
671C LEU* 4.4 6.5 - - + -
757C ILE* 5.5 0.9 - - + -
761C ILE* 2.9 31.1 - - + +
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Residues in contact with GLN 597 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593C MET* 2.9 53.3 + - - +
594C THR* 3.4 13.6 + - - +
595C LEU 3.1 0.6 - - - -
596C LEU* 1.3 73.4 - - - +
598C TYR* 1.3 67.3 + - + +
599C SER 2.9 9.9 + - - -
600C TRP* 3.1 21.1 + - - -
760C GLN* 3.2 23.2 + - - +
761C ILE* 3.7 27.4 - - + +
763C LYS* 5.4 6.4 - - - +
765C SER* 5.6 6.8 - - - -
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Residues in contact with TYR 598 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594C THR* 2.9 47.9 + - + +
595C LEU* 4.2 2.2 - - + +
597C GLN* 1.3 76.3 - - + +
599C SER* 1.3 56.7 + - - +
602C SER* 5.5 0.9 - - - -
674C SER* 3.5 43.2 + - - +
675C VAL* 3.9 2.2 - - - -
676C PRO* 3.6 32.8 - - + +
729C VAL* 5.5 6.9 - - - +
765C SER* 4.1 17.9 - - - -
767C GLY 5.2 0.7 + - - -
768C ASN 4.5 2.3 + - - -
769C ILE* 3.5 46.6 - - + +
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Residues in contact with SER 599 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595C LEU 2.8 19.3 + - - -
596C LEU 4.1 1.2 + - - -
597C GLN 3.0 0.6 - - - -
598C TYR* 1.3 80.2 - - - +
600C TRP* 1.3 67.7 + - - +
601C MET 3.1 3.6 - - - -
602C SER* 3.0 19.5 + - - +
603C LEU* 3.0 15.9 + - - +
670C LEU 3.4 25.8 - - - -
671C LEU* 3.3 26.0 - - - +
673C SER* 4.7 2.7 - - - -
674C SER* 5.0 2.0 - - - -
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Residues in contact with TRP 600 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C 486 3.7 34.3 - + - -
571C VAL* 3.7 25.1 - - + -
574C ALA* 5.7 3.4 - - + -
596C LEU* 3.2 17.8 + - + +
597C GLN 3.1 25.0 + - - -
599C SER* 1.3 76.6 - - - +
601C MET* 1.3 104.8 + - + +
603C LEU* 3.4 12.8 + - - +
604C MET* 3.1 41.8 + - + +
733C LEU* 4.6 12.2 - - + +
736C CYS* 4.7 9.2 - - + -
761C ILE* 3.3 34.4 + - + -
762C PRO* 3.6 20.1 - - + +
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Residues in contact with MET 601 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C 486 3.9 33.2 - - + -
599C SER 3.1 0.6 - - - -
600C TRP* 1.3 120.7 - - + +
602C SER* 1.3 57.0 + - - +
604C MET* 4.4 1.1 - - - -
605C ALA* 2.7 38.3 + - - +
729C VAL* 4.1 15.5 - - + -
732C LEU* 3.8 32.3 - - + -
733C LEU* 3.6 33.2 - - + -
736C CYS* 3.9 12.8 - - - -
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Residues in contact with SER 602 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598C TYR 5.5 0.9 - - - -
599C SER* 3.0 17.6 + - - -
601C MET* 1.3 78.7 - - - +
603C LEU* 1.3 56.2 + - - +
606C PHE* 3.0 31.9 + - - +
670C LEU* 3.4 32.1 + - - +
673C SER* 4.9 3.5 + - - -
725C MET* 3.6 17.6 - - - +
729C VAL* 3.4 23.9 - - - +
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Residues in contact with LEU 603 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574C ALA* 4.1 25.1 - - + -
577C TRP* 3.6 32.5 - - + -
596C LEU* 5.1 4.9 - - + -
599C SER* 3.0 29.6 + - - +
600C TRP* 3.5 10.8 - - - +
602C SER* 1.3 75.2 - - - +
604C MET* 1.3 63.9 + - + +
606C PHE* 4.0 1.0 - - - +
607C ALA* 3.0 24.9 + - - +
667C LYS* 3.4 42.1 - - + +
670C LEU* 4.2 3.1 - - + -
671C LEU* 4.0 15.7 - - + +
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Residues in contact with MET 604 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C 486 3.7 24.9 - - + -
567C GLY 3.7 17.5 - - - +
570C GLN* 3.3 34.7 - - + +
571C VAL* 3.2 41.7 - - + +
574C ALA* 4.9 6.5 - - + -
600C TRP* 3.1 40.4 + - + +
601C MET* 3.2 6.5 + - - +
603C LEU* 1.3 75.9 - - - +
605C ALA* 1.3 54.8 + - - +
607C ALA* 3.2 7.2 + - - +
608C LEU* 2.7 37.0 + - - +
611C ARG* 4.8 0.7 + - - -
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Residues in contact with ALA 605 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C 486 4.7 4.9 - - - +
601C MET* 2.7 23.1 + - + +
602C SER* 4.6 0.2 - - - -
604C MET* 1.3 74.8 - - - +
606C PHE* 1.3 54.6 + - - +
608C LEU* 3.4 10.6 + - - +
609C GLY* 2.9 23.9 + - - -
646C MET* 5.2 5.2 - - + +
649C VAL* 4.0 10.1 - - + +
725C MET* 4.0 17.7 - - + -
728C VAL* 5.1 3.8 - - + -
729C VAL* 5.3 0.7 - - + -
732C LEU* 3.8 27.4 - - + -
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Residues in contact with PHE 606 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602C SER 3.0 21.3 + - - +
603C LEU* 4.0 3.4 - - - +
605C ALA* 1.3 72.9 - - - +
607C ALA* 1.3 61.2 + - - +
609C GLY* 3.0 2.1 + - - -
610C TRP* 2.8 29.3 + - - +
649C VAL* 4.0 12.3 - - + -
653C LEU* 4.0 13.7 - - + +
663C TYR* 3.4 41.5 - + - -
666C MET* 3.7 43.7 - - + -
667C LYS* 4.1 9.2 - - + -
670C LEU* 3.4 24.7 - - + -
721C LEU* 4.0 22.0 - - + -
722C LEU* 4.3 4.5 - - + -
725C MET* 3.9 18.3 - - + +
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Residues in contact with ALA 607 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540B GLU* 5.3 1.3 - - - +
570C GLN* 5.4 0.7 - - - +
603C LEU 3.0 19.3 + - - +
604C MET* 3.5 5.2 - - - +
606C PHE* 1.3 77.4 - - - +
608C LEU* 1.3 62.0 + - - +
610C TRP* 3.8 0.5 - - - +
611C ARG* 3.0 48.3 + - + +
663C TYR* 3.3 25.0 + - - +
667C LYS* 4.3 5.3 - - + +
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Residues in contact with LEU 608 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C 486 4.0 15.0 - - + +
604C MET 2.7 20.4 + - - +
605C ALA* 3.5 7.9 - - - +
607C ALA* 1.3 71.5 - - - +
609C GLY* 1.3 63.4 + - - +
611C ARG* 3.4 11.1 + - - +
612C SER* 3.1 28.5 + - - +
621C LEU* 4.2 9.6 - - + -
622C CYS 3.2 32.5 - - - +
623C PHE* 3.4 43.7 - - + -
646C MET* 3.5 34.5 - - + +
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Residues in contact with GLY 609 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605C ALA 2.9 15.2 + - - -
606C PHE 3.0 4.0 + - - -
608C LEU* 1.3 77.0 - - - +
610C TRP* 1.3 62.3 + - - +
612C SER* 4.7 0.2 - - - -
613C TYR* 3.2 5.7 + - - +
621C LEU* 6.4 0.4 - - - -
646C MET 4.8 3.4 - - - -
649C VAL* 3.8 17.3 - - - -
650C SER* 2.8 36.6 + - - -
653C LEU* 3.5 7.0 - - - -
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Residues in contact with TRP 610 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606C PHE 2.8 9.9 + - - +
607C ALA 3.8 1.3 - - - +
609C GLY* 1.3 69.8 - - - +
611C ARG* 1.3 77.3 + - + +
613C TYR* 3.0 29.9 + + - +
614C ARG* 3.1 48.1 + - + +
653C LEU* 3.3 18.6 - - + +
658C VAL* 3.3 24.9 - - + -
659C SER* 3.4 4.0 - - - -
660C TYR* 3.4 50.0 - + + -
663C TYR* 3.2 69.5 - + + -
542D GLU* 4.4 8.1 - - - +
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Residues in contact with ARG 611 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543B VAL* 6.3 3.6 - - - +
544B LEU 6.0 0.9 + - - +
4C 486 2.9 10.9 + - - -
570C GLN* 2.8 27.3 + - - -
604C MET 4.8 0.2 + - - -
607C ALA* 3.0 55.5 + - + +
608C LEU* 3.7 9.0 - - - +
610C TRP* 1.3 88.1 - - + +
612C SER* 1.3 53.7 + - - +
614C ARG* 3.2 1.6 + - - -
615C GLN* 2.7 56.8 + - - +
622C CYS* 3.5 18.0 + - + +
623C PHE 2.9 21.6 + - - -
624C ALA* 5.2 3.4 - - - +
625C PRO* 5.7 6.2 - - - +
663C TYR* 5.5 1.1 - - - +
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Residues in contact with SER 612 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
608C LEU* 3.1 18.6 + - - +
610C TRP 3.2 0.2 - - - -
611C ARG* 1.3 74.1 - - - +
613C TYR* 1.3 61.7 + - - +
616C SER* 3.1 15.8 + - - -
618C ALA* 2.9 17.1 + - - -
620C LEU 3.0 17.0 + - - -
621C LEU* 3.4 6.9 - - - +
622C CYS* 2.8 36.3 + - - +
647C LEU* 5.1 0.7 - - - -
650C SER* 3.2 20.2 - - - -
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Residues in contact with TYR 613 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609C GLY 3.2 3.8 + - - +
610C TRP* 3.0 23.5 + + - +
612C SER* 1.3 75.9 - - - +
614C ARG* 1.3 85.6 + - - +
617C SER* 3.1 22.2 + - - -
618C ALA* 3.6 6.3 - - + +
650C SER* 3.0 24.4 + - - +
653C LEU* 3.8 26.7 - - + -
654C HIS* 3.8 27.8 - + + -
657C GLN* 3.2 39.7 + - - -
658C VAL 3.5 25.8 + - - -
----------------------------------------------------------
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Residues in contact with ARG 614 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610C TRP* 3.1 52.4 + - + +
611C ARG* 3.8 4.0 - - - +
613C TYR* 1.3 112.1 + - - +
615C GLN* 1.3 78.2 + - - +
617C SER 4.7 0.9 + - - -
658C VAL 4.9 1.2 + - - -
537D GLU* 5.7 1.0 - - - +
542D GLU* 2.8 42.8 + - - +
----------------------------------------------------------
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Residues in contact with GLN 615 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
611C ARG* 2.7 55.6 + - - +
614C ARG* 1.3 87.3 + - - +
616C SER* 1.3 58.7 + - - +
617C SER 3.7 0.4 - - - -
622C CYS* 3.3 27.1 - - + +
625C PRO* 5.3 6.6 - - + +
537D GLU* 5.6 1.9 - - - +
538D VAL* 3.2 62.6 + - + +
----------------------------------------------------------
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Residues in contact with SER 616 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
612C SER 3.1 10.5 + - - -
615C GLN* 1.3 78.5 - - - +
617C SER* 1.3 70.4 + - - +
618C ALA 3.1 0.2 - - - -
619C ASN* 3.0 22.1 + - - +
620C LEU* 3.2 39.7 + - - +
622C CYS* 4.1 10.5 - - - -
628C ILE* 6.0 2.5 - - - -
----------------------------------------------------------
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Residues in contact with SER 617 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
613C TYR* 3.1 17.7 + - - -
614C ARG 4.5 0.8 + - - -
615C GLN 3.7 1.0 - - - -
616C SER* 1.3 79.7 - - - +
618C ALA* 1.3 64.7 + - - +
619C ASN* 3.3 15.7 + - - +
654C HIS* 3.3 26.7 + - - -
----------------------------------------------------------
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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).
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