Contacts of the helix formed by residues 586 - 614 (chain A) in PDB entry 2QR8
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 ALA 586 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571A GLU* 5.3 3.5 - - + +
584A PHE* 3.8 18.2 - - + -
585A VAL* 1.3 76.3 - - - +
587A PRO* 1.3 72.6 - - + +
588A GLU* 2.8 32.8 - - - +
589A VAL* 2.9 22.5 + - + +
590A LEU* 3.0 10.2 + - - +
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Residues in contact with PRO 587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584A PHE* 4.3 13.0 - - + -
585A VAL 3.4 4.8 - - - +
586A ALA* 1.3 86.7 - - + +
588A GLU* 1.3 58.5 + - + +
590A LEU* 3.3 12.2 + - + +
591A GLU* 2.7 37.9 + - - +
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Residues in contact with GLU 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586A ALA* 2.8 33.5 - - - +
587A PRO* 1.3 83.7 - - + +
589A VAL* 1.3 70.0 + - + +
591A GLU* 4.1 10.7 - - - +
592A ARG* 3.3 22.7 + - - +
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Residues in contact with VAL 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
568A LEU* 3.9 13.7 - - + -
569A ARG* 4.3 8.5 - - + +
585A VAL* 3.6 19.7 - - + -
586A ALA* 2.9 16.6 + - + +
588A GLU* 1.3 89.6 - - + +
590A LEU* 1.3 61.6 + - - +
592A ARG* 3.7 3.9 + - - +
593A GLN* 3.2 25.9 + - + +
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Residues in contact with LEU 590 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
568A LEU* 4.1 23.8 - - + -
581A THR* 4.6 20.0 - - + -
585A VAL* 3.7 39.9 - - + +
586A ALA 3.0 7.5 + - - +
587A PRO* 3.4 13.2 - - + +
589A VAL* 1.3 74.3 - - - +
591A GLU* 1.3 65.6 + - - +
593A GLN* 3.1 14.7 + - + +
594A GLY* 3.2 10.0 + - - -
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Residues in contact with GLU 591 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587A PRO 2.7 22.3 + - - +
588A GLU* 4.5 8.2 - - - +
590A LEU* 1.3 71.6 - - - +
592A ARG* 1.3 61.3 + - - +
594A GLY* 3.2 4.4 + - - +
595A TYR* 2.2 64.7 + - + +
665A HIS* 6.5 0.9 - - + -
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Residues in contact with ARG 592 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538A ARG* 4.3 20.3 - - - +
588A GLU 3.3 18.4 + - - +
589A VAL* 4.0 4.5 - - - +
590A LEU 3.3 0.4 - - - -
591A GLU* 1.3 79.7 - - - +
593A GLN* 1.3 56.7 + - - +
594A GLY 3.4 0.2 - - - -
595A TYR* 3.5 17.1 + - + +
596A ASP* 2.9 60.8 + - - +
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Residues in contact with GLN 593 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534A GLY* 4.1 7.9 + - - -
536A VAL* 3.5 37.2 - - - +
566A LYS* 4.0 15.6 - - - +
567A GLN 4.5 0.2 - - - -
568A LEU* 3.6 45.3 + - + +
589A VAL* 3.2 19.6 + - + +
590A LEU* 3.1 13.1 + - + +
592A ARG* 1.3 75.9 - - + +
594A GLY* 1.3 58.8 + - - +
596A ASP* 3.9 5.3 - - - +
597A ALA* 3.0 30.3 + - - +
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Residues in contact with GLY 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590A LEU 3.2 6.9 + - - -
591A GLU* 3.2 7.7 + - - -
593A GLN* 1.3 76.8 - - - +
595A TYR* 1.3 64.7 + - - +
597A ALA* 3.5 5.4 + - - +
598A ALA* 3.2 23.2 + - - +
664A PRO* 5.3 1.0 - - - +
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Residues in contact with TYR 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591A GLU* 2.2 57.3 + - + -
592A ARG* 3.7 17.9 - - + +
593A GLN 3.4 0.2 - - - -
594A GLY* 1.3 75.3 - - - +
596A ASP* 1.3 67.3 + - - +
598A ALA* 3.2 9.0 + - - +
599A CYS* 3.0 30.1 + - - -
664A PRO* 4.5 19.1 - - + -
665A HIS* 4.8 20.8 + + - -
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Residues in contact with ASP 596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536A VAL* 3.9 20.9 - - + +
538A ARG* 3.2 38.0 + - + +
566A LYS* 5.6 0.7 - - - +
592A ARG* 2.9 48.2 + - - +
593A GLN* 3.9 6.5 - - - +
595A TYR* 1.3 77.9 - - - +
597A ALA* 1.3 60.3 + - - +
599A CYS* 3.5 10.0 + - - +
600A ASP* 3.3 24.8 + - - +
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Residues in contact with ALA 597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
531A HIS* 3.4 29.0 - - + +
536A VAL* 3.7 14.8 - - + +
593A GLN 3.0 19.2 + - - +
594A GLY* 3.8 6.3 - - - +
595A TYR 3.2 0.2 - - - -
596A ASP* 1.3 72.6 - - - +
598A ALA* 1.3 65.1 + - - +
600A ASP* 3.2 17.8 + - - +
601A ILE* 3.3 8.2 + - - +
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Residues in contact with ALA 598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594A GLY 3.2 9.4 + - - +
595A TYR 3.2 7.7 + - - +
597A ALA* 1.3 79.1 - - - +
599A CYS* 1.3 56.3 + - - +
601A ILE* 3.2 6.9 + - - +
602A TRP 3.0 23.2 + - - -
664A PRO* 3.5 39.7 - - + +
667A ARG* 3.0 22.7 + - + +
668A LEU 5.6 1.6 - - - +
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Residues in contact with CYS 599 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
538A ARG* 6.2 2.7 - - - -
595A TYR* 3.0 22.4 + - - -
596A ASP* 3.8 13.2 - - - +
597A ALA 3.3 0.2 - - - -
598A ALA* 1.3 72.0 - - - +
600A ASP* 1.3 64.9 + - - +
602A TRP* 3.9 8.8 - - + +
603A SER* 3.2 25.1 + - - -
664A PRO* 6.5 0.2 - - - -
667A ARG* 4.1 9.4 - - - +
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Residues in contact with ASP 600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
527A VAL* 4.5 3.1 - - + +
531A HIS* 2.8 29.7 + - + +
536A VAL* 3.6 2.6 - - - +
537A HIS* 2.8 32.2 + - - +
538A ARG* 3.1 24.3 + - - -
540A LEU* 4.0 21.4 - - + +
596A ASP 3.3 11.2 + - - +
597A ALA 3.2 11.1 + - - +
599A CYS* 1.3 76.9 - - - +
601A ILE* 1.3 64.8 + - - +
603A SER* 3.4 4.3 + - - -
604A LEU* 3.3 23.0 + - - +
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Residues in contact with ILE 601 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524A THR* 5.1 0.4 - - + -
527A VAL* 4.1 17.0 - - + -
531A HIS* 4.2 4.5 - - + +
597A ALA 3.3 10.7 + - - +
598A ALA* 3.2 8.6 + - - +
600A ASP* 1.3 72.7 - - - +
602A TRP* 1.3 64.5 + - - +
604A LEU* 3.0 15.8 + - + +
605A GLY* 2.9 18.7 + - - -
659A MET* 3.7 29.6 - - + +
667A ARG* 4.5 2.2 - - + -
668A LEU 3.5 26.9 - - - +
669A THR* 4.4 1.6 - - - -
670A ALA* 3.6 36.3 - - + +
673A VAL* 4.1 11.0 - - + -
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Residues in contact with TRP 602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598A ALA 3.0 16.5 + - - +
599A CYS* 3.9 11.0 - - + +
601A ILE* 1.3 73.4 - - - +
603A SER* 1.3 67.2 + - - +
605A GLY* 3.0 4.9 + - - -
606A VAL* 2.9 39.9 + - + +
618A PHE* 3.5 31.1 - + - -
633A ILE* 4.0 28.1 - - + +
659A MET 3.5 11.4 - - - -
660A LEU* 3.5 32.7 + - + +
662A VAL* 6.0 1.2 - - - +
667A ARG* 3.7 31.0 - - - +
706A THR* 4.3 6.1 - - + -
707A TYR* 4.1 12.3 - + - -
710A LEU* 3.5 34.8 - - + -
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Residues in contact with SER 603 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540A LEU* 3.3 31.3 + - - +
542A PRO* 5.3 2.1 - - - +
599A CYS 3.2 12.1 + - - -
600A ASP 3.5 9.4 - - - -
601A ILE 3.2 0.2 - - - -
602A TRP* 1.3 84.7 - - - +
604A LEU* 1.3 57.1 + - - +
606A VAL* 3.2 4.5 + - - +
607A LEU* 2.9 26.2 + - - +
707A TYR* 2.8 34.1 + - - -
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Residues in contact with LEU 604 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520A LEU* 4.0 7.7 - - + +
523A ILE* 3.6 24.0 - - + -
524A THR* 3.6 34.3 - - + +
527A VAL* 4.3 10.5 - - + -
540A LEU* 3.9 21.8 - - + +
545A ILE* 4.6 7.2 - - + -
600A ASP 3.3 10.3 + - - +
601A ILE* 3.0 25.6 + - + +
603A SER* 1.3 76.5 - - - +
605A GLY* 1.3 56.9 + - - +
607A LEU* 3.4 11.2 - - + +
608A LEU* 2.9 29.3 + - - +
659A MET* 3.4 17.7 - - + +
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Residues in contact with GLY 605 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
601A ILE 2.9 10.7 + - - -
602A TRP 3.0 6.9 + - - -
604A LEU* 1.3 73.4 - - - +
606A VAL* 1.3 62.2 + - - +
608A LEU* 3.4 3.7 + - - +
609A TYR* 3.0 26.7 + - - +
656A VAL* 4.8 2.3 - - - +
659A MET* 3.5 28.2 - - - +
660A LEU* 3.7 14.1 - - - +
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Residues in contact with VAL 606 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542A PRO* 5.2 1.6 - - + -
602A TRP* 2.9 49.5 + - + +
603A SER 3.2 7.2 + - - +
605A GLY* 1.3 72.9 - - - +
607A LEU* 1.3 60.1 + - - +
609A TYR* 3.9 1.2 - - - +
610A THR* 2.8 31.2 + - - -
616A THR* 5.4 1.1 - - + -
617A PRO* 4.2 25.1 - - + +
618A PHE* 4.3 1.6 - - + -
660A LEU* 3.9 12.3 - - + -
703A MET* 3.6 32.5 - - + -
706A THR* 5.6 4.9 - - + -
707A TYR* 4.2 10.5 - - + +
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Residues in contact with LEU 607 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
501A LEU* 4.1 12.8 - - + -
502A LEU* 4.0 27.8 - - + -
520A LEU* 4.6 12.6 - - + -
523A ILE* 3.6 31.2 - - + -
542A PRO* 4.0 28.5 - - + +
545A ILE* 4.2 15.3 - - + -
603A SER 2.9 13.2 + - - +
604A LEU* 3.4 13.7 - - + +
606A VAL* 1.3 78.0 - - - +
608A LEU* 1.3 61.5 + - - +
610A THR* 3.4 4.9 + - - -
611A MET* 3.0 37.3 + - + +
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Residues in contact with LEU 608 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
520A LEU* 4.0 8.3 - - + +
604A LEU 2.9 20.3 + - - +
605A GLY* 3.4 6.3 + - - +
607A LEU* 1.3 72.4 - - - +
609A TYR* 1.3 62.7 + - - +
611A MET* 3.2 21.3 + - + +
612A LEU* 3.0 40.2 + - + +
652A ALA 4.6 1.1 - - - +
655A LEU* 3.6 31.0 - - + -
656A VAL* 3.4 28.3 - - + -
659A MET* 3.9 11.9 - - - -
678A TRP* 3.5 31.4 - - + -
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Residues in contact with TYR 609 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605A GLY 3.0 17.1 + - - +
606A VAL 3.9 4.7 - - - +
608A LEU* 1.3 76.5 - - - +
610A THR* 1.3 62.1 + - - +
612A LEU* 3.4 0.9 + - - +
613A THR* 3.0 32.3 + - - +
615A TYR* 3.3 42.6 + + - -
617A PRO* 3.6 44.7 + - + +
638A PHE* 4.4 10.6 - + + +
639A SER* 3.0 35.2 + - - -
640A LEU* 4.1 4.3 - - + -
645A TRP* 3.5 30.8 + + - -
656A VAL* 3.7 19.2 - - + +
660A LEU* 4.0 4.0 - - + -
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Residues in contact with THR 610 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
502A LEU* 3.8 16.6 - - + -
506A LEU* 3.7 7.5 - - + +
606A VAL 2.8 18.5 + - - -
607A LEU 3.8 2.7 - - - -
609A TYR* 1.3 76.9 - - - +
611A MET* 1.3 58.3 + - - +
614A GLY* 2.7 32.4 + - - -
615A TYR 3.2 25.0 + - - +
616A THR* 3.6 9.2 - - - -
617A PRO* 4.1 0.9 - - - +
699A VAL* 3.6 31.0 - - + -
703A MET* 3.5 14.1 - - + +
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Residues in contact with MET 611 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
501A LEU* 4.9 0.9 - - - -
502A LEU* 3.7 21.3 - - + -
505A ILE* 4.1 22.4 - - + -
506A LEU* 4.6 0.4 - - - -
511A PHE* 4.5 5.3 - - + -
516A ALA* 3.9 26.2 - - + +
519A VAL* 4.0 25.1 - - + -
520A LEU* 4.6 7.4 - - + -
607A LEU* 3.0 30.0 + - + +
608A LEU* 3.6 37.0 - - + +
610A THR* 1.3 75.5 - - - +
612A LEU* 1.3 61.6 + - - +
690A LEU* 3.6 6.4 - - - +
692A ARG* 2.8 30.4 + - - +
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Residues in contact with LEU 612 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513A GLU* 4.1 14.6 - - + -
516A ALA* 4.2 13.2 - - + -
608A LEU* 3.0 39.9 + - + +
609A TYR 3.8 4.0 - - - +
611A MET* 1.3 78.6 - - - +
613A THR* 1.3 59.1 + - + +
644A TYR 4.5 3.6 - - - +
645A TRP* 4.0 29.2 - - + -
648A VAL* 4.3 5.9 - - + +
652A ALA* 3.9 23.8 - - + -
656A VAL* 4.1 4.0 - - + -
678A TRP* 4.1 12.6 - - + -
690A LEU* 3.8 32.6 - - + +
691A ASN 4.5 2.8 - - - +
692A ARG* 3.3 14.1 - - - +
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Residues in contact with THR 613 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609A TYR* 3.0 13.8 + - - +
612A LEU* 1.3 80.9 - - - +
614A GLY* 1.3 63.0 + - - +
615A TYR* 3.1 36.8 + - - -
644A TYR* 4.0 13.8 - - + +
645A TRP* 3.2 54.5 - - + +
648A VAL* 5.5 0.2 - - + -
692A ARG* 3.2 10.9 - - - -
693A GLN 2.9 21.3 + - - -
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Residues in contact with GLY 614 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
506A LEU* 3.8 17.3 - - - +
610A THR* 2.7 23.4 + - - -
613A THR* 1.3 71.9 - - - +
615A TYR* 1.3 58.8 + - - +
692A ARG* 3.8 5.1 - - - +
693A GLN* 3.7 29.4 - - - +
695A ALA 4.9 2.8 + - - -
699A VAL* 3.3 19.9 - - - +
----------------------------------------------------------
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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