Contacts of the helix formed by residues 586 - 614 (chain A) in PDB entry 3N57
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 586 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584A TYR 3.1 1.1 - - - -
585A VAL* 1.3 82.9 - - + +
587A PRO* 1.3 78.3 - - + +
588A LEU* 3.7 18.1 + - - +
589A HIS* 2.8 43.0 + - - +
590A SER* 2.9 20.4 + - - -
695A TRP* 3.5 12.4 + - + -
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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
----------------------------------------------------------
586A ASP* 1.3 87.8 - - + +
588A LEU* 1.3 62.6 + - - +
590A SER* 3.2 4.1 + - - -
591A ASN* 2.9 28.2 + - - +
695A TRP* 3.5 38.8 - - + -
699A GLU* 3.9 26.2 - - + +
700A LEU* 4.1 12.3 - - + +
703A ALA* 3.8 20.0 - - + -
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Residues in contact with LEU 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586A ASP* 3.3 13.5 + - - +
587A PRO* 1.3 79.2 - - - +
589A HIS* 1.3 82.2 + - + +
591A ASN* 3.4 6.3 + - - +
592A MET* 3.0 43.9 + - + +
703A ALA* 3.6 32.5 - - + +
706A ASP* 3.8 22.7 - - + +
707A VAL* 3.9 15.7 - - + +
711A ARG* 4.6 13.7 - - + +
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Residues in contact with HIS 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582A PHE* 3.4 41.9 - + - +
583A ALA 3.3 8.7 - - - +
585A VAL* 3.5 23.6 - - + +
586A ASP* 2.8 33.4 + - - +
588A LEU* 1.3 95.5 - - + +
590A SER* 1.3 61.2 + - - +
592A MET* 3.9 12.5 - - - +
593A ALA* 3.0 24.3 + - - +
715A PHE* 3.9 17.7 - + + -
718A GLN* 5.8 1.0 - - - +
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Residues in contact with SER 590 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583A ALA 3.4 9.9 + - - -
584A TYR* 2.8 40.5 - - - -
586A ASP 2.9 10.1 + - - -
587A PRO* 3.4 9.4 - - - -
589A HIS* 1.3 74.9 - - - +
591A ASN* 1.3 64.0 - - - -
593A ALA* 3.3 3.5 + - - +
594A TYR* 2.9 23.6 + - - +
622A ASN* 3.9 7.8 + - - +
666A TYR* 5.1 0.9 - - - -
695A TRP* 3.6 4.1 - - - -
700A LEU* 3.5 18.4 - - - -
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Residues in contact with ASN 591 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587A PRO 2.9 15.4 + - - -
588A LEU* 3.5 8.9 - - - +
590A SER* 1.3 75.9 - - - +
592A MET* 1.3 58.4 + - - +
594A TYR* 3.3 3.9 + - - +
595A LEU* 2.9 34.2 + - - +
666A TYR* 2.9 35.2 + - + -
700A LEU* 2.8 44.2 + - - +
703A ALA* 3.6 5.9 - - - +
704A LEU* 3.2 22.6 - - + +
707A VAL* 4.0 11.2 - - + -
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Residues in contact with MET 592 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588A LEU* 3.0 42.0 + - + +
589A HIS* 3.9 7.9 - - - +
590A SER 3.2 0.2 - - - -
591A ASN* 1.3 72.9 - - - +
593A ALA* 1.3 58.1 + - - +
595A LEU* 3.3 3.7 + - - -
596A TYR* 2.8 36.9 + - - +
707A VAL* 4.0 26.2 - - + -
711A ARG* 3.2 46.9 - - + +
712A LEU* 3.8 13.2 - - + +
715A PHE* 3.6 40.4 - - + -
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Residues in contact with ALA 593 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583A ALA* 3.7 20.6 - - + +
589A HIS 3.0 18.6 + - - +
590A SER 3.5 4.7 - - - +
592A MET* 1.3 77.3 - - - +
594A TYR* 1.3 65.3 + - - +
596A TYR* 3.5 5.1 + - - +
597A LEU* 3.3 23.9 + - - +
622A ASN* 4.0 19.0 - - + +
626A GLY 5.1 0.9 - - - +
627A MET* 5.8 2.9 - - + -
715A PHE* 3.5 18.7 - - + -
719A LEU* 5.7 2.9 - - + -
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Residues in contact with TYR 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590A SER 2.9 13.7 + - - +
591A ASN 3.4 7.6 - - - +
593A ALA* 1.3 78.9 - - - +
595A LEU* 1.3 69.9 + - + +
597A LEU* 3.1 2.6 + - - +
598A GLU* 3.0 57.7 + - + +
622A ASN* 3.4 29.7 - - - +
662A ILE* 5.5 0.9 - - + -
666A TYR* 3.4 56.1 - + + +
669A SER* 5.3 3.6 + - - -
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Residues in contact with LEU 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591A ASN 2.9 22.5 + - - +
592A MET 3.8 3.8 - - - +
594A TYR* 1.3 78.5 - - + +
596A TYR* 1.3 56.4 + - - +
598A GLU* 3.4 3.4 + - - +
599A LEU* 2.9 40.9 + - + +
659A PHE* 4.3 14.6 - - + +
662A ILE* 4.0 23.6 - - + -
663A LYS* 4.3 16.6 - - + +
666A TYR* 4.0 22.7 - - + -
704A LEU* 4.2 15.5 - - + -
707A VAL* 3.7 30.1 - - + -
712A LEU* 4.3 10.1 - - + -
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Residues in contact with TYR 596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592A MET 2.8 22.5 + - - +
593A ALA* 3.5 4.9 - - - +
594A TYR 3.1 0.2 + - - -
595A LEU* 1.3 74.4 - - - +
597A LEU* 1.3 79.9 + - + +
599A LEU* 3.5 7.6 - - - +
600A LEU* 2.9 30.1 + - + +
627A MET* 4.2 5.6 - - - -
649A MET* 2.9 43.1 + - + +
652A PHE* 4.1 18.2 - + + -
654A ILE* 6.4 0.2 - - - -
712A LEU* 4.4 12.7 - - + +
715A PHE* 4.4 6.7 - + + -
716A ILE* 3.6 37.5 - - + -
719A LEU* 3.9 30.1 - - + -
720A LEU* 3.8 9.2 - - + +
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Residues in contact with LEU 597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593A ALA 3.3 8.9 + - - +
594A TYR 3.1 6.5 + - - +
596A TYR* 1.3 100.0 - - + +
598A GLU* 1.3 65.0 + - - +
600A LEU* 3.3 9.0 + - + +
601A LYS* 3.1 37.6 + - - +
620A LEU* 4.1 25.8 - - + +
621A GLN* 3.5 12.6 - - - +
622A ASN* 3.4 31.6 - - + +
627A MET* 3.4 33.0 - - + -
649A MET* 5.2 0.4 - - - -
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Residues in contact with GLU 598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594A TYR* 3.0 57.8 + - + +
595A LEU* 3.6 8.3 - - - +
597A LEU* 1.3 75.0 - - - +
599A LEU* 1.3 57.6 + - - +
601A LYS* 2.9 32.0 + - - +
602A ASP* 3.1 27.4 + - - +
662A ILE* 4.0 25.8 - - + +
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Residues in contact with LEU 599 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595A LEU* 2.9 25.4 + - + +
596A TYR* 3.5 4.5 - - - +
598A GLU* 1.3 73.6 - - - +
600A LEU* 1.3 66.6 + - - +
602A ASP* 3.6 4.7 - - - +
603A SER* 3.1 18.7 + - - -
652A PHE* 3.5 20.7 - - + -
654A ILE* 4.1 18.6 - - + -
655A ASP 5.9 0.4 - - - +
658A ARG* 3.7 29.6 - - + +
659A PHE* 3.8 16.4 - - + +
662A ILE* 3.5 29.2 - - + -
712A LEU* 3.7 27.6 - - + -
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Residues in contact with LEU 600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596A TYR* 2.9 17.5 + - + +
597A LEU* 3.5 16.6 - - + +
598A GLU 3.3 0.4 - - - -
599A LEU* 1.3 76.2 - - - +
601A LYS* 1.3 51.6 + - - +
603A SER* 2.9 6.9 + - - -
604A LEU* 2.8 45.8 + - + +
620A LEU* 3.8 24.2 - - + -
645A ILE* 4.6 3.8 - - + +
648A LYS* 3.7 40.2 - - + +
649A MET* 3.8 36.6 - - + +
652A PHE* 3.7 17.4 - - + -
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Residues in contact with LYS 601 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597A LEU* 3.1 21.0 + - - +
598A GLU* 2.9 31.5 + - - +
600A LEU* 1.3 74.8 - - - +
602A ASP* 1.3 67.3 + - - +
604A LEU* 3.7 0.7 - - - -
605A ASN* 2.9 25.1 + - - +
618A TYR* 3.7 32.4 + - + +
620A LEU* 2.7 42.5 + - + +
621A GLN* 5.2 3.6 - - - +
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Residues in contact with ASP 602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
351A LYS* 2.7 36.5 + - - +
598A GLU 3.1 18.3 + - - +
599A LEU* 3.6 5.9 - - - +
601A LYS* 1.3 79.8 - - - +
603A SER* 1.3 64.3 + - - +
605A ASN* 3.2 17.1 + - - +
606A GLU 4.7 0.7 + - - -
658A ARG* 2.5 52.5 + - - +
662A ILE* 3.9 11.7 - - + +
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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
----------------------------------------------------------
599A LEU 3.1 9.5 + - - -
600A LEU 2.9 13.0 + - - -
602A ASP* 1.3 82.8 - - - +
604A LEU* 1.3 59.8 + - - +
605A ASN 3.5 0.3 + - - -
606A GLU* 4.6 6.6 + - - +
607A TYR* 5.3 1.0 + - - +
648A LYS* 3.2 33.4 + - - +
652A PHE* 3.5 14.6 - - - -
658A ARG* 6.5 0.4 - - - -
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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
----------------------------------------------------------
600A LEU* 2.8 27.8 + - + +
601A LYS 3.9 0.9 - - - +
602A ASP 3.2 0.2 - - - -
603A SER* 1.3 76.8 + - - +
605A ASN* 1.3 58.8 + - - +
606A GLU 3.5 0.7 - - - -
607A TYR* 3.3 16.6 + - + +
608A ALA* 3.0 28.8 + - + +
618A TYR* 3.5 28.0 - - + +
620A LEU* 5.7 0.4 - - + -
641A LEU* 5.5 1.1 - - + -
644A LYS* 4.4 22.0 - - + -
645A ILE* 3.8 35.0 - - + -
648A LYS* 3.5 31.2 - - + +
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Residues in contact with ASN 605 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A GLU* 2.7 40.5 + - - +
347A LEU* 4.5 4.6 - - - +
351A LYS* 4.0 17.6 - - - +
601A LYS 2.9 12.0 + - - +
602A ASP* 3.2 17.6 + - - +
603A SER 3.3 0.4 - - - -
604A LEU* 1.3 74.9 - - - +
606A GLU* 1.3 68.2 + - - +
608A ALA* 4.4 4.3 - - - +
609A TYR* 2.9 30.3 + - - +
618A TYR* 5.8 0.4 - - - -
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Residues in contact with GLU 606 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
341A GLU 3.6 21.8 - - - +
342A GLY* 3.9 13.7 - - - -
343A PRO* 3.8 34.5 - - + +
348A SER* 2.2 32.6 + - - +
351A LYS* 6.0 5.4 - - - +
602A ASP 4.7 0.6 + - - -
603A SER 4.6 5.2 + - - +
604A LEU 3.5 0.6 - - - -
605A ASN* 1.3 80.1 - - + +
607A TYR* 1.3 62.6 + - - +
609A TYR* 3.9 5.5 + - - +
610A ALA* 4.4 4.3 + - - +
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Residues in contact with TYR 607 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
530A PHE* 3.3 42.2 - + - -
603A SER 5.3 1.0 + - - +
604A LEU* 3.3 19.2 + - + +
605A ASN 3.2 0.2 - - - -
606A GLU* 1.3 80.8 - - - +
608A ALA* 1.3 65.5 + - + +
609A TYR 3.4 1.0 + - - -
610A ALA* 3.8 10.2 + - - +
611A ALA 4.0 5.0 + - - -
640A ILE* 3.4 19.1 - - - +
641A LEU* 4.1 14.1 - - + -
644A LYS* 3.7 53.1 - - + +
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Residues in contact with ALA 608 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604A LEU* 3.0 19.0 + - + +
605A ASN* 3.1 5.1 + - - +
607A TYR* 1.3 76.8 - - + +
609A TYR* 1.3 64.1 + - - +
611A ALA* 3.2 12.4 + - + +
612A GLU* 3.1 23.8 + - - +
618A TYR* 3.8 31.6 - - + -
641A LEU* 4.7 10.3 - - + -
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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
----------------------------------------------------------
336A HIS* 4.9 4.2 + - - -
339A GLY 3.6 5.8 + - - -
340A HIS* 3.8 23.0 - + - -
341A GLU* 3.4 65.5 - - + +
342A GLY* 4.5 0.4 - - - +
605A ASN* 2.9 19.2 + - - +
606A GLU 4.1 6.3 - - - +
607A TYR 3.3 0.6 - - - -
608A ALA* 1.3 75.6 - - - +
610A ALA* 1.3 62.3 + - - +
612A GLU* 3.1 26.2 + - - +
613A LEU* 3.0 60.6 + - + +
1C SER* 3.5 26.9 - - - -
2C LEU* 4.0 6.6 + - - +
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Residues in contact with ALA 610 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A HIS* 5.6 7.8 - - + +
528A ASN* 3.0 46.6 + - + +
529A GLU 5.5 0.9 - - - +
530A PHE* 4.2 7.2 - - + -
606A GLU 4.4 3.7 + - - +
607A TYR 3.8 8.9 + - - +
608A ALA 3.4 0.4 - - - -
609A TYR* 1.3 79.6 - - - +
611A ALA* 1.3 64.3 + - - +
613A LEU* 3.4 7.5 + - - -
614A ALA* 3.4 9.4 + - - +
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Residues in contact with ALA 611 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
530A PHE* 3.6 39.9 - - + -
607A TYR 4.0 0.4 + - - -
608A ALA* 3.2 17.8 + - + +
609A TYR 3.2 0.6 - - - -
610A ALA* 1.3 79.1 - - - +
612A GLU* 1.3 57.9 + - - +
614A ALA* 3.0 18.7 + - - +
616A LEU* 3.1 34.5 + - + +
641A LEU* 4.4 9.2 - - + -
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Residues in contact with GLU 612 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
608A ALA 3.1 15.2 + - - +
609A TYR* 3.1 34.2 + - + +
611A ALA* 1.3 71.9 - - - +
613A LEU* 1.3 64.9 + - + +
614A ALA 2.8 6.0 + - - -
615A GLY* 3.0 12.1 + - - -
616A LEU 3.1 14.4 - - - +
617A SER* 3.9 20.3 - - - -
1C SER* 5.9 1.0 - - - -
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Residues in contact with LEU 613 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
336A HIS* 3.8 28.9 - - + +
340A HIS* 4.0 7.2 - - - +
414A LEU* 6.3 0.9 - - + -
417A LEU* 3.5 22.7 - - + +
528A ASN* 4.0 9.9 - - - +
609A TYR* 3.0 60.7 + - + +
610A ALA* 3.5 13.7 - - - +
611A ALA 3.4 0.2 - - - -
612A GLU* 1.3 80.8 - - + +
614A ALA* 1.3 56.2 + - - +
615A GLY 3.4 1.1 + - - -
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Residues in contact with ALA 614 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
417A LEU* 4.3 12.1 - - + -
528A ASN* 4.2 5.6 - - - +
530A PHE* 3.6 30.8 - - + +
531A ILE* 3.9 8.5 - - - +
532A PRO* 3.7 7.1 - - + +
610A ALA 3.4 9.4 + - - +
611A ALA 3.0 9.3 + - - +
612A GLU 2.8 1.0 - - - -
613A LEU* 1.3 79.6 - - - +
615A GLY* 1.3 60.0 + - - +
616A LEU* 3.2 5.8 + - + +
634A TYR* 3.3 19.3 - - - -
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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