Contacts of the helix formed by residues 620 - 649 (chain O) in PDB entry 6CNC
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 LEU 620 (chain O).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602O LEU* 5.4 3.1 - - + -
605O LYS* 4.0 24.0 - - - +
619O LEU* 1.3 83.4 - - + +
621O PRO* 1.3 84.0 - - + +
622O SER* 3.7 22.4 - - - +
623O GLU* 3.7 16.4 - - + +
624O LEU* 3.2 17.0 + - - +
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Residues in contact with PRO 621 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
620O LEU* 1.3 98.3 - - + +
622O SER* 1.3 59.6 + - - +
624O LEU* 3.4 7.3 + - + +
625O ASN* 2.9 25.7 + - - +
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Residues in contact with SER 622 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602O LEU* 5.6 0.2 - - - -
620O LEU* 3.7 17.2 - - - +
621O PRO* 1.3 79.8 - - - +
623O GLU* 1.3 67.6 + - - +
625O ASN* 3.2 23.7 + - - +
626O GLN* 3.4 16.4 + - - +
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Residues in contact with GLU 623 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602O LEU* 3.6 33.9 - - + +
605O LYS* 5.6 4.5 - - + -
606O ALA* 4.3 13.5 - - + +
619O LEU* 2.8 32.9 + - + +
620O LEU* 3.7 17.7 - - + +
621O PRO 3.3 0.6 - - - -
622O SER* 1.3 82.7 + - - +
624O LEU* 1.3 80.1 + - - +
625O ASN 3.2 0.7 + - - -
626O GLN* 3.6 2.3 + - - +
627O LEU* 3.0 53.8 + - - +
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Residues in contact with LEU 624 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
619O LEU 3.2 22.4 - - - +
620O LEU 3.2 17.4 + - - +
621O PRO* 3.4 10.6 + - + +
623O GLU* 1.3 104.0 + - - +
625O ASN* 1.3 64.7 + - - +
627O LEU* 3.7 20.3 + - + +
628O LYS* 4.4 7.3 + - - +
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Residues in contact with ASN 625 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
621O PRO 2.9 14.8 + - - +
622O SER* 3.3 19.2 - - - +
623O GLU 3.1 0.6 - - - -
624O LEU* 1.3 80.7 - - - +
626O GLN* 1.3 61.3 + - + +
627O LEU 3.6 0.2 + - - -
628O LYS* 4.3 3.6 + - - +
629O MET* 3.7 27.6 + - - +
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Residues in contact with GLN 626 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598O GLU* 4.5 11.7 + - - +
599O ASN* 2.3 33.4 + - - +
602O LEU* 3.3 18.5 - - + +
622O SER* 3.4 14.0 + - - +
623O GLU 4.3 0.2 - - - +
625O ASN* 1.3 76.4 - - + +
627O LEU* 1.3 66.7 + - - +
629O MET* 3.6 26.0 - - + +
630O VAL* 2.9 27.4 + - + +
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Residues in contact with LEU 627 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599O ASN* 5.4 4.5 - - - +
602O LEU* 5.2 7.6 - - + -
606O ALA* 5.0 11.2 - - + -
623O GLU* 3.0 54.0 + - + +
624O LEU* 3.9 16.8 - - + +
625O ASN 3.4 1.0 - - - -
626O GLN* 1.3 77.4 - - - +
628O LYS* 1.3 65.4 + - + +
630O VAL* 3.3 4.1 - - + +
631O ASN* 2.9 47.2 + - - +
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Residues in contact with LYS 628 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
624O LEU 4.4 6.5 + - - +
625O ASN 4.3 4.9 + - - +
627O LEU* 1.3 85.3 - - + +
629O MET* 1.3 63.1 + - - +
631O ASN* 4.2 10.8 - - + +
632O GLU* 2.9 48.4 + - + +
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Residues in contact with MET 629 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
625O ASN* 3.7 25.3 + - - +
626O GLN* 3.4 28.2 + - + +
627O LEU 3.1 0.4 - - - -
628O LYS* 1.3 81.9 - - - +
630O VAL* 1.3 63.2 + - - +
632O GLU* 4.1 2.7 - - - +
633O ARG* 2.9 21.8 + - - +
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Residues in contact with VAL 630 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595O LEU* 3.6 34.3 - - + +
596O LYS* 6.2 2.9 - - + -
598O GLU* 5.8 1.3 - - + -
599O ASN* 3.2 28.5 - - + +
603O LEU* 5.7 6.1 - - + -
626O GLN* 2.9 24.5 + - + +
627O LEU* 3.3 9.2 - - + +
629O MET* 1.3 73.8 - - - +
631O ASN* 1.3 69.2 + - - +
633O ARG* 3.1 7.5 - - - +
634O GLU* 2.9 33.4 + - + +
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Residues in contact with ASN 631 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
627O LEU* 2.9 44.9 + - - +
628O LYS* 3.9 11.8 - - + +
630O VAL* 1.3 82.4 - - - +
632O GLU* 1.3 69.1 + - + +
633O ARG 3.0 0.7 - - - -
634O GLU* 2.8 12.7 + - - +
635O LEU* 2.8 31.3 + - + +
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Residues in contact with GLU 632 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
628O LYS* 2.9 40.1 + - + +
629O MET* 4.2 1.9 - - - +
631O ASN* 1.3 72.4 - - + +
633O ARG* 1.3 63.1 + - - +
635O LEU* 3.7 15.9 - - + +
636O ASN* 2.9 33.8 + - - +
52Q ARG* 5.7 7.5 + - - +
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Residues in contact with ARG 633 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591O LYS* 3.4 41.2 + - - +
595O LEU* 3.4 40.9 - - + +
629O MET 2.9 22.0 + - - +
630O VAL* 3.1 7.9 - - - +
632O GLU* 1.3 73.9 - - - +
634O GLU* 1.3 64.9 + - - +
636O ASN* 3.1 14.1 + - - +
637O VAL* 2.9 35.9 + - - +
306P ASP* 5.2 3.8 - - - +
308P GLU* 3.2 46.9 + - - +
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Residues in contact with GLU 634 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592O LYS* 3.8 24.2 - - - +
595O LEU* 3.9 18.4 - - - +
596O LYS* 4.3 15.0 - - - +
630O VAL* 2.9 25.3 + - + +
631O ASN* 2.8 17.6 + - - +
633O ARG* 1.3 70.1 + - - +
635O LEU* 1.3 57.6 - - + +
637O VAL* 2.5 43.7 + - - +
638O PHE* 2.9 38.5 + - + -
59Q ILE* 5.0 9.6 - - + -
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Residues in contact with LEU 635 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
631O ASN* 2.8 25.1 + - + +
632O GLU* 3.8 17.5 - - + +
634O GLU* 1.3 70.6 - - + +
636O ASN* 1.3 57.3 + - - +
638O PHE* 4.0 2.7 - - + +
639O ALA* 3.0 27.9 + - - +
47Q ILE* 3.4 22.6 - - + +
52Q ARG* 4.6 21.3 - - - +
55Q ALA* 3.6 27.8 - - + -
56Q VAL* 3.9 25.8 - - + +
59Q ILE* 4.5 13.0 - - + -
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Residues in contact with ASN 636 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632O GLU* 2.9 25.1 + - - +
633O ARG* 3.1 11.4 + - - +
634O GLU 2.9 0.4 + - - -
635O LEU* 1.3 74.6 - - - +
637O VAL* 1.3 65.9 + - - +
639O ALA* 3.0 6.1 + - - +
640O ARG* 2.9 39.2 + - - +
306P ASP* 4.9 11.2 + - - +
308P GLU* 5.3 8.2 + - + +
45Q GLY 5.5 0.5 - - - +
46Q PRO* 4.7 6.0 - - - +
47Q ILE* 4.3 21.5 + - - +
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Residues in contact with VAL 637 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588O LEU* 3.3 46.2 - - + +
591O LYS* 4.1 12.8 - - + -
592O LYS* 4.4 8.1 - - + +
633O ARG* 2.9 18.9 + - - +
634O GLU* 2.5 51.8 + - - +
636O ASN* 1.3 71.9 - - - +
638O PHE* 1.3 67.0 + - + +
640O ARG* 3.3 11.5 - - - +
641O LEU* 3.0 20.6 + - - +
308P GLU* 5.0 4.7 - - + -
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Residues in contact with PHE 638 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589O LEU* 5.7 0.2 - - + -
592O LYS* 3.3 43.1 - - + -
634O GLU* 2.9 51.6 + - + +
635O LEU* 4.4 4.3 - - - +
637O VAL* 1.3 78.4 - - + +
639O ALA* 1.3 62.5 + - - +
641O LEU* 3.5 18.4 - - + +
642O SER* 2.9 32.6 + - - -
55Q ALA* 4.5 16.6 - - + -
58Q TYR* 3.3 41.5 - + + -
59Q ILE* 4.3 23.3 - - + -
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Residues in contact with ALA 639 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
635O LEU 3.0 22.0 + - - +
636O ASN* 3.3 7.4 - - - +
638O PHE* 1.3 73.2 - - - +
640O ARG* 1.3 67.5 + - + +
642O SER* 3.2 2.4 + - - -
643O ARG* 3.0 26.6 + - - +
45Q GLY 5.4 2.9 - - - +
47Q ILE* 3.8 17.9 - - + +
51Q GLU* 3.0 38.9 - - - +
55Q ALA* 5.5 0.2 - - - +
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Residues in contact with ARG 640 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588O LEU* 3.6 24.6 - - + +
636O ASN* 2.9 26.1 + - - +
637O VAL* 3.3 8.1 - - - +
639O ALA* 1.3 75.7 - - - +
641O LEU* 1.3 64.1 + - - +
643O ARG* 2.9 8.6 + - - +
644O LEU* 2.8 28.9 + - + +
302P ALA* 5.0 6.7 - - - +
306P ASP* 4.9 7.5 + - - -
308P GLU* 3.5 17.8 + - + +
309P VAL* 3.1 24.7 - - - +
310P VAL* 3.6 4.8 - - + +
43Q ILE* 3.7 25.4 - - + -
44Q ASN* 2.6 57.2 + - - +
45Q GLY 4.5 3.5 + - - -
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Residues in contact with LEU 641 (chain O).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131O LEU* 4.8 13.5 - - + +
585O MET* 4.5 24.9 - - + -
588O LEU* 3.3 18.4 - - + +
589O LEU* 5.6 12.6 - - + -
637O VAL 3.0 15.9 + - - +
638O PHE* 3.2 27.8 + - + +
640O ARG* 1.3 74.5 - - - +
642O SER* 1.3 57.7 + - - +
644O LEU* 4.8 1.6 - - + +
645O LEU* 2.8 41.9 + - + +
58Q TYR* 3.7 27.1 - - + +
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Residues in contact with SER 642 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
638O PHE* 2.9 14.6 + - - +
639O ALA* 3.5 8.8 - - - -
641O LEU* 1.3 77.6 - - - +
643O ARG* 1.3 57.6 + - - +
645O LEU* 3.5 9.3 - - - +
646O SER* 2.9 34.0 + - - -
292P SER* 5.5 4.3 - - - -
51Q GLU* 4.3 11.1 - - - +
54Q LEU* 3.2 31.7 - - - +
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Residues in contact with ARG 643 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
639O ALA* 3.0 16.7 + - - +
640O ARG* 2.9 7.4 + - - +
642O SER* 1.3 71.3 - - - +
644O LEU* 1.3 68.2 + - - +
646O SER* 2.8 16.4 + - - -
647O LEU* 3.0 11.1 + - - +
292P SER* 3.3 36.5 + - - +
293P ILE* 3.4 28.4 - - - +
299P MET* 4.8 4.9 - - - +
43Q ILE* 3.1 53.9 + - + +
45Q GLY 4.3 5.1 + - - -
46Q PRO 3.4 21.5 + - - -
47Q ILE* 4.2 1.0 - - - +
48Q THR* 4.5 3.6 - - - +
51Q GLU* 2.4 38.1 + - - +
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Residues in contact with LEU 644 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
580O ASN* 3.7 26.0 + - - +
583O TRP* 4.9 0.4 - - + -
584O ASN* 4.1 18.6 - - + +
585O MET* 4.0 23.1 - - + +
588O LEU* 4.8 5.4 - - + -
640O ARG* 2.8 22.6 + - + +
641O LEU* 4.3 3.8 - - - +
643O ARG* 1.3 72.6 - - - +
645O LEU* 1.3 63.1 + - - +
647O LEU* 3.0 9.6 + - - +
648O TRP* 2.8 23.6 + - - +
310P VAL* 3.6 27.4 - - + -
41Q LEU* 5.4 3.6 - - + -
43Q ILE* 3.4 38.6 - - + +
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Residues in contact with LEU 645 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131O LEU* 3.6 33.7 - - + +
132O TYR* 3.3 47.1 - - + +
135O LEU* 4.4 9.9 - - + +
585O MET* 3.7 15.3 - - + +
641O LEU* 2.8 28.8 + - + +
642O SER* 3.5 8.5 - - - +
644O LEU* 1.3 75.6 - - - +
646O SER* 1.3 67.3 + - - +
648O TRP* 3.1 5.0 + - + +
649O GLU* 2.9 39.3 + - - +
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Residues in contact with SER 646 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135O LEU* 5.8 1.4 - - - +
295O GLN* 3.6 26.4 + - - -
642O SER* 2.9 17.1 + - - -
643O ARG* 2.8 17.7 + - - -
645O LEU* 1.3 73.9 - - - +
647O LEU* 1.3 61.9 + - - +
649O GLU* 3.4 28.6 + - - +
650O VAL 4.8 0.2 + - - -
292P SER* 3.9 22.6 + - - -
293P ILE 5.8 2.9 - - - -
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Residues in contact with LEU 647 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
295O GLN* 5.1 5.3 + - - +
492O TYR 6.1 0.9 - - - +
494O TYR 5.9 1.6 - - - +
495O VAL* 5.2 14.1 - - + +
577O MET* 4.1 13.7 - - + -
580O ASN* 3.3 24.0 - - - +
643O ARG 3.0 10.4 + - - +
644O LEU* 3.5 9.6 - - + +
646O SER* 1.3 78.4 - - - +
648O TRP* 1.3 57.9 + - - +
649O GLU 3.0 5.9 + - - -
650O VAL* 3.0 33.6 + - + +
651O PHE* 4.7 8.7 - - + -
294P PHE* 5.8 8.7 - - + -
41Q LEU* 4.4 16.6 - - + -
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Residues in contact with TRP 648 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128O HIS* 4.6 6.1 + + - -
131O LEU* 5.3 7.9 - - + +
132O TYR* 4.7 7.6 - + - -
577O MET 4.1 7.4 - - - -
578O ARG* 3.6 38.8 - - + -
580O ASN* 4.4 8.4 - - + +
581O LEU* 3.5 60.9 - - + +
585O MET* 3.7 24.0 - - + -
644O LEU 2.8 19.3 + - - +
645O LEU* 3.6 6.1 - - + +
647O LEU* 1.3 67.2 - - - +
649O GLU* 1.3 56.7 + - - +
650O VAL* 2.8 13.6 + - - -
651O PHE* 3.7 17.4 + + + +
652O GLN* 2.5 46.4 + - + +
----------------------------------------------------------
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Residues in contact with GLU 649 (chain O).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132O TYR* 4.1 21.1 - - - +
135O LEU* 3.1 31.5 - - - +
291O ARG* 3.2 42.7 + - + +
292O ARG* 2.7 36.3 + - - +
295O GLN* 3.5 19.3 - - + +
645O LEU* 2.9 28.6 + - + +
646O SER* 3.4 19.4 + - - +
647O LEU 3.0 1.2 + - - -
648O TRP* 1.3 75.7 - - - +
650O VAL* 1.3 49.2 + - - +
652O GLN* 4.6 4.5 - - - +
----------------------------------------------------------
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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