Contacts of the helix formed by residues 588 - 616 (chain G) in PDB entry 4P6X
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 G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586G ASN 4.0 0.2 + - - -
587G LEU* 1.3 75.7 - - - +
589G LEU* 1.3 73.3 + - + +
590G ASP* 2.7 55.5 + - + -
591G ASP* 2.8 27.6 + - - +
592G GLN* 3.2 8.5 + - - +
681G LYS* 3.4 26.6 + - + +
682G SER* 2.9 16.9 + - - +
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Residues in contact with LEU 589 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587G LEU 3.4 2.0 + - - -
588G HIS* 1.3 82.0 + - + +
590G ASP* 1.3 70.9 + - - +
592G GLN* 3.2 23.1 + - - +
593G MET* 3.2 42.3 + - + +
746H ARG* 4.2 18.2 - - + +
749H LEU* 4.2 24.2 - - + -
750H ASP* 4.2 26.0 - - + +
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Residues in contact with ASP 590 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588G HIS* 2.7 29.0 + - + -
589G LEU* 1.3 86.8 - - - +
591G ASP* 1.3 59.8 + - - +
593G MET* 3.4 11.1 + - - +
594G THR* 3.0 29.5 + - - -
681G LYS* 2.8 28.1 + - + -
746H ARG* 5.7 2.6 + - - -
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Residues in contact with ASP 591 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587G LEU* 4.0 12.6 - - + -
588G HIS* 2.8 18.3 + - - +
590G ASP* 1.3 76.5 - - - +
592G GLN* 1.3 58.8 + - - +
594G THR* 3.2 2.0 + - - -
595G LEU* 2.8 37.6 + - - +
680G LEU* 3.2 31.0 - - + +
681G LYS* 2.8 25.2 + - - +
682G SER* 2.7 39.2 + - - -
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Residues in contact with GLN 592 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584G PHE* 3.6 51.4 - - + +
585G ARG* 3.3 30.0 + - - +
587G LEU* 2.7 28.0 + - + +
588G HIS 3.2 7.8 + - - +
589G LEU* 3.2 23.9 + - - +
591G ASP* 1.3 76.6 - - - +
593G MET* 1.3 61.0 + - - +
595G LEU* 4.6 0.4 - - - -
596G LEU* 3.3 28.4 + - - +
749H LEU* 3.7 23.6 - - + +
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Residues in contact with MET 593 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589G LEU* 3.2 31.7 + - + +
590G ASP* 3.6 14.8 - - - +
591G ASP 3.2 0.4 - - - -
592G GLN* 1.3 76.7 - - - +
594G THR* 1.3 58.9 + - - +
596G LEU 3.3 1.4 + - - -
597G GLN* 2.9 48.0 + - - +
742H ASN* 3.5 38.1 - - + +
745H LEU* 3.6 12.8 - - + +
746H ARG* 3.9 31.6 - - - +
749H LEU* 3.5 22.7 - - + -
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Residues in contact with THR 594 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590G ASP 3.0 17.8 + - - -
591G ASP* 3.2 2.9 + - - -
593G MET* 1.3 76.4 - - - +
595G LEU* 1.3 59.5 + - + +
597G GLN* 3.7 10.3 + - - +
598G TYR* 2.9 58.7 + - + -
675G ILE* 4.9 0.7 - - - -
676G PRO* 3.5 26.6 - - + +
680G LEU* 3.7 12.1 - - + -
763G LYS* 3.9 18.5 + - - -
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Residues in contact with LEU 595 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584G PHE* 3.7 15.7 - - + -
587G LEU* 3.5 31.4 - - + -
591G ASP 2.8 19.2 + - - +
592G GLN 3.9 4.0 - - - +
594G THR* 1.3 77.5 - - + +
596G LEU* 1.3 57.3 + - - +
598G TYR* 3.4 1.4 + - - +
599G SER* 2.8 35.0 + - - -
671G LEU* 3.7 23.7 - - + +
672G LEU* 4.3 11.7 - - + -
674G THR 3.6 21.9 - - - +
675G ILE* 4.0 6.3 - - + -
680G LEU* 4.2 8.3 - - + -
686G PHE* 3.8 24.0 - - + -
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Residues in contact with LEU 596 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571G VAL* 6.5 0.7 - - + -
574G ALA* 4.2 13.9 - - + +
575G VAL* 4.1 22.2 - - + -
578G ALA* 4.0 19.1 - - + -
584G PHE* 4.1 13.5 - - + -
592G GLN 3.3 17.6 + - - +
593G MET 3.3 4.3 + - - +
595G LEU* 1.3 79.1 - - - +
597G GLN* 1.3 57.8 + - - +
599G SER* 4.1 2.5 - - - -
600G TRP* 3.1 36.4 + - + +
603G LEU* 4.5 11.2 - - + -
671G LEU* 4.0 10.3 - - + -
756G ILE* 5.1 3.1 - - + +
745H LEU* 4.3 10.8 - - + -
749H LEU* 3.6 31.9 - - + -
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Residues in contact with GLN 597 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593G MET* 2.9 35.9 + - - +
594G THR* 3.7 14.6 + - - +
595G LEU 3.3 0.2 - - - -
596G LEU* 1.3 78.9 - - - +
598G TYR* 1.3 60.4 + - + +
600G TRP* 3.3 17.2 + - - -
755G GLU* 6.0 0.2 - - - +
756G ILE* 4.2 19.1 - - + +
759G ASN* 3.2 20.4 + - - +
760G GLN* 3.6 29.5 + - + +
763G LYS* 3.9 6.5 + - - +
764G TYR* 4.2 1.4 + - - -
742H ASN* 3.4 36.4 + - - +
745H LEU* 3.6 16.2 - - + +
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Residues in contact with TYR 598 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594G THR* 2.9 51.0 + - + +
595G LEU 3.9 3.4 - - - +
597G GLN* 1.3 79.2 - - + +
599G SER* 1.3 59.1 + - - +
600G TRP* 3.7 1.3 + - - -
601G MET* 5.0 1.6 + - - +
602G ALA* 5.5 0.2 - - - +
674G THR* 3.5 46.8 + - + +
675G ILE 3.7 1.6 - - - -
676G PRO* 3.5 28.7 - - + +
729G VAL* 4.9 12.1 - - - +
733G LEU* 5.1 2.3 - - - +
760G GLN* 3.7 12.3 - - - -
763G LYS* 4.0 14.6 + - + +
764G TYR* 3.6 24.2 + + - -
768G ASN* 2.8 31.3 + - - -
769G ILE* 3.6 19.3 - - + -
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Residues in contact with SER 599 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595G LEU 2.8 20.6 + - - -
596G LEU* 4.1 0.7 - - - -
598G TYR* 1.3 79.1 - - - +
600G TRP* 1.3 66.3 + - - +
601G MET 3.2 2.9 - - - -
602G ALA* 2.9 10.7 + - - +
603G LEU* 2.9 25.9 + - - +
670G LEU 3.4 25.8 - - - -
671G LEU* 3.4 25.5 - - - +
673G SER* 4.9 2.5 - - - -
674G THR* 5.3 4.3 - - - -
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Residues in contact with TRP 600 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571G VAL* 3.6 32.8 - - + -
574G ALA* 6.4 1.1 - - + -
596G LEU* 3.1 17.0 + - + +
597G GLN 3.3 25.4 + - - -
598G TYR 5.0 1.3 - - - -
599G SER* 1.3 76.6 - - - +
601G MET* 1.3 92.5 + - + +
603G LEU* 3.2 12.3 + - - +
604G MET* 2.9 37.8 + - + +
733G LEU* 4.3 12.5 - - + +
736G CYS* 4.1 19.5 - - - -
737G PHE* 6.3 0.2 - - - -
753G LEU* 3.6 29.6 - - + -
756G ILE* 3.6 28.9 - - + +
757G ILE* 4.5 9.8 - - + +
760G GLN* 5.3 2.0 - - - +
900G HCY 4.0 27.1 - - + -
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Residues in contact with MET 601 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598G TYR 5.0 1.3 + - - +
599G SER 3.2 1.0 - - - -
600G TRP* 1.3 112.7 - - + +
602G ALA* 1.3 62.7 + - - +
604G MET* 4.5 0.9 - - - -
605G ALA* 3.0 23.7 + - - +
729G VAL* 4.1 14.4 - - + -
732G LEU* 3.7 44.2 - - + +
733G LEU* 3.8 30.3 - - + -
736G CYS* 3.9 8.7 - - + -
900G HCY 3.8 40.6 - - + -
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Residues in contact with ALA 602 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599G SER* 2.9 19.5 + - - +
601G MET* 1.3 77.6 - - - +
603G LEU* 1.3 63.2 + - - +
606G PHE* 3.1 26.3 + - - +
670G LEU* 3.9 30.9 - - + +
673G SER* 5.3 2.2 - - - +
725G MET* 3.8 8.2 - - + +
729G VAL* 3.5 25.7 - - + +
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Residues in contact with LEU 603 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574G ALA* 4.6 9.4 - - + -
577G TRP* 3.6 34.8 - - + -
596G LEU* 4.5 10.8 - - + -
599G SER* 2.9 30.7 + - - +
600G TRP* 3.5 11.4 - - - +
602G ALA* 1.3 76.6 - - - +
604G MET* 1.3 74.0 + - + +
606G PHE* 3.4 4.6 + - - +
607G ALA* 3.1 25.8 + - - +
667G LYS* 3.4 37.6 - - + +
670G LEU* 4.5 3.1 - - + -
671G LEU* 4.1 17.5 - - + +
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Residues in contact with MET 604 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567G GLY 4.3 1.8 - - - +
570G GLN* 3.3 40.5 - - + +
571G VAL* 4.1 11.0 - - + +
574G ALA* 4.0 24.0 - - + -
600G TRP* 2.9 38.7 + - + +
601G MET* 3.9 3.6 - - - +
603G LEU* 1.3 90.6 - - + +
605G ALA* 1.3 58.0 + - - +
607G ALA* 4.0 6.9 - - + +
608G LEU* 3.0 28.2 + - - +
611G ARG* 4.8 0.3 + - - -
900G HCY 3.7 34.3 - - + +
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Residues in contact with ALA 605 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
601G MET 3.0 17.8 + - - +
602G ALA* 4.0 2.5 - - - +
604G MET* 1.3 75.7 - - - +
606G PHE* 1.3 55.7 + - - +
608G LEU* 3.2 9.7 + - - +
609G GLY* 2.8 31.9 + - - -
646G MET* 5.2 3.1 - - + -
649G VAL* 4.0 13.2 - - + +
725G MET* 4.4 12.6 - - + -
728G VAL* 5.2 1.8 - - + -
729G VAL* 5.8 0.2 - - + -
732G LEU* 3.7 26.7 - - + -
900G HCY 4.2 6.5 - - + -
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Residues in contact with PHE 606 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602G ALA 3.1 18.7 + - - +
603G LEU* 3.8 5.2 - - - +
605G ALA* 1.3 78.0 - - - +
607G ALA* 1.3 57.2 + - - +
609G GLY* 3.2 1.6 + - - -
610G TRP* 2.9 28.2 + - - +
649G VAL* 4.2 10.1 - - + -
653G LEU* 4.1 23.1 - - + +
663G TYR* 3.5 38.0 - + - -
666G MET* 3.8 44.0 - - + -
667G LYS* 4.0 13.9 - - + -
670G LEU* 3.6 24.2 - - + -
721G LEU* 4.5 11.7 - - + -
722G LEU* 5.0 1.3 - - + -
725G MET* 3.8 23.2 - - + +
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Residues in contact with ALA 607 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540G GLU* 5.3 4.0 - - - +
570G GLN* 6.1 0.4 - - - +
603G LEU 3.1 17.2 + - - +
604G MET* 4.0 7.9 - - + +
606G PHE* 1.3 76.9 - - - +
608G LEU* 1.3 57.5 + - - +
610G TRP* 3.4 1.7 + - - +
611G ARG* 3.0 49.6 + - + +
663G TYR* 3.2 22.3 + - - +
667G LYS* 4.5 6.5 - - + +
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Residues in contact with LEU 608 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604G MET 3.0 15.9 + - - +
605G ALA* 3.3 9.9 - - - +
607G ALA* 1.3 75.6 - - - +
609G GLY* 1.3 59.1 + - - +
611G ARG* 3.3 12.9 + - - +
612G SER* 2.8 41.8 + - - +
621G LEU* 4.6 5.4 - - + -
622G TYR 3.7 6.3 - - - +
623G PHE* 3.6 65.5 - - + +
646G MET* 3.6 34.3 - - + -
900G HCY 4.0 9.0 - - + -
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Residues in contact with GLY 609 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605G ALA 2.8 17.3 + - - -
606G PHE 3.2 3.1 + - - -
608G LEU* 1.3 74.5 - - - +
610G TRP* 1.3 56.2 + - - +
612G SER* 3.3 2.1 + - - -
613G TYR* 2.8 32.2 + - - +
621G LEU* 5.9 0.2 - - - -
646G MET 4.9 2.7 - - - -
649G VAL* 3.8 17.5 - - - -
650G SER* 3.7 16.3 - - - -
653G LEU* 3.6 7.0 - - - -
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Residues in contact with TRP 610 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606G PHE 2.9 7.2 + - - +
607G ALA 3.7 3.6 - - - +
609G GLY* 1.3 73.2 - - - +
611G ARG* 1.3 72.3 + - + +
613G TYR* 3.4 23.0 - + - +
614G ARG* 3.0 61.2 + - + +
653G LEU* 3.4 14.6 - - + +
658G VAL* 3.3 31.6 - - + -
659G SER* 4.5 0.2 - - - -
660G TYR* 3.2 54.5 - + + -
663G TYR* 3.3 59.0 - + + -
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Residues in contact with ARG 611 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
543G VAL* 3.9 34.4 - - + +
570G GLN* 3.6 14.6 + - - +
604G MET 4.8 0.6 + - - -
607G ALA* 3.0 42.4 + - - +
608G LEU* 3.7 13.7 - - - +
610G TRP* 1.3 82.0 - - + +
612G SER* 1.3 58.0 + - - +
614G ARG* 4.9 1.6 - - - -
615G GLN* 2.9 41.4 + - + +
622G TYR* 3.0 37.7 + - + +
623G PHE 3.2 17.0 + - - -
900G HCY 2.8 28.3 + - - -
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Residues in contact with SER 612 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
608G LEU* 2.8 22.4 + - - +
609G GLY 3.6 1.3 - - - -
611G ARG* 1.3 77.9 - - - +
613G TYR* 1.3 62.2 + - - +
615G GLN* 5.0 0.2 - - - -
616G SER* 3.4 21.7 + - - +
618G ALA 4.9 4.2 - - - +
620G LEU* 3.6 22.6 - - - +
621G LEU* 3.3 11.6 - - - +
622G TYR* 2.8 30.6 + - - +
650G SER* 3.6 17.6 + - - -
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Residues in contact with TYR 613 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609G GLY 2.8 16.7 + - - +
610G TRP* 3.4 45.5 - + - -
612G SER* 1.3 76.9 - - - +
614G ARG* 1.3 73.3 + - + +
616G SER 3.2 14.6 - - - +
650G SER* 3.7 18.4 + - - +
653G LEU* 3.8 17.7 - - + -
654G HIS* 3.4 47.9 - + + -
657G GLN* 3.9 17.5 + - - -
658G VAL 3.3 19.7 + - - -
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Residues in contact with ARG 614 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610G TRP* 3.0 61.1 + - + +
611G ARG* 4.3 3.1 - - - +
613G TYR* 1.3 91.4 + - + +
615G GLN* 1.3 69.7 + - + +
616G SER 4.5 0.2 - - - -
658G VAL 5.3 0.2 + - - -
659G SER* 6.1 1.0 - - - +
660G TYR* 5.2 9.8 - - - +
616I SER 4.0 4.5 - - - +
617I SER* 3.0 50.2 + - - +
----------------------------------------------------------
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Residues in contact with GLN 615 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
611G ARG* 2.9 27.3 + - - +
612G SER* 4.8 0.4 - - - +
613G TYR 3.5 0.2 - - - -
614G ARG* 1.3 87.1 - - - +
616G SER* 1.3 60.4 + - - +
622G TYR* 3.6 51.9 + - + -
614I ARG 3.7 1.4 - - - +
615I GLN* 3.3 8.7 - - - +
616I SER* 3.1 36.2 + - - +
617I SER 5.4 0.6 + - - -
620I LEU* 5.9 3.1 - - - +
----------------------------------------------------------
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Residues in contact with SER 616 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
612G SER 3.4 14.4 + - - +
613G TYR* 3.2 22.2 - - - +
614G ARG 4.5 0.2 - - - -
615G GLN* 1.3 80.4 - - - +
617G SER* 1.3 67.4 + - - +
618G ALA* 3.5 13.5 + - - +
620G LEU* 4.1 23.3 - - - +
614I ARG 4.0 7.9 - - - -
615I GLN* 2.8 30.6 + - - -
----------------------------------------------------------
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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