Contacts of the helix formed by residues 575 - 608 (chain A) in PDB entry 5FLZ
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 SER 575 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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572A ILE 4.9 1.7 + - - -
573A ILE 3.4 9.8 + - - -
574A ILE* 1.3 78.8 + - - +
576A ARG* 1.3 69.0 + - - +
577A THR* 3.1 9.9 - - - -
578A CYS* 3.3 28.7 + - - +
579A MET* 3.3 20.7 + - - +
676A LEU* 5.1 2.4 - - - +
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Residues in contact with ARG 576 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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575A SER* 1.3 77.6 - - - +
577A THR* 1.3 80.1 + - + +
579A MET* 3.5 16.1 + - + +
580A ILE* 3.4 29.9 + - + +
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Residues in contact with THR 577 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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575A SER* 4.2 11.4 - - - -
576A ARG* 1.3 99.0 + - + +
578A CYS* 1.4 65.7 + - - +
580A ILE* 3.1 19.2 - - + +
581A LYS* 3.0 34.0 + - - +
680A LEU* 4.5 15.2 - - - +
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Residues in contact with CYS 578 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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573A ILE 5.1 0.2 - - - -
574A ILE* 5.1 4.3 - - + -
575A SER* 3.3 29.9 + - - +
577A THR* 1.4 84.2 + - - +
579A MET* 1.4 63.7 + - + +
581A LYS* 3.2 4.2 + - - +
582A TYR* 3.1 45.3 + - + -
676A LEU* 3.7 34.8 - - - -
680A LEU* 3.8 25.4 - - + -
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Residues in contact with MET 579 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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426A PHE* 4.8 10.0 - - + -
562A PHE* 6.0 0.3 - - - -
564A ILE* 3.8 30.5 - - + +
566A ILE* 4.4 12.3 - - + -
574A ILE* 4.0 32.3 - - + -
575A SER* 3.3 24.4 + - - +
576A ARG* 3.7 14.4 - - + +
578A CYS* 1.4 76.2 - - + +
580A ILE* 1.3 62.3 + - + +
582A TYR* 3.5 12.0 + - - +
583A GLN* 3.0 29.4 + - - +
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Residues in contact with ILE 580 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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576A ARG* 3.4 15.3 - - + +
577A THR* 3.1 34.1 - - + +
579A MET* 1.3 83.3 - - + +
581A LYS* 1.4 70.9 + - + +
583A GLN* 3.5 12.8 + - - +
584A ILE* 3.3 31.5 + - + +
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Residues in contact with LYS 581 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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577A THR* 3.0 27.5 + - - +
578A CYS* 3.2 5.8 + - - +
580A ILE* 1.4 83.0 - - + +
582A TYR* 1.4 70.2 + - + +
584A ILE* 3.3 6.3 + - + +
585A ILE 3.3 6.6 + - - -
679A GLY 5.4 0.4 - - - +
680A LEU* 3.8 55.6 - - + +
683A ILE* 3.1 36.4 - - + +
684A MET* 4.5 24.0 - - - +
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Residues in contact with TYR 582 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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426A PHE* 3.2 63.5 - + + +
427A LEU* 3.7 30.7 - - + -
574A ILE* 6.5 0.4 - - + -
578A CYS* 3.1 39.5 + - + +
579A MET* 3.8 3.8 - - - +
581A LYS* 1.4 79.0 - - + +
583A GLN* 1.3 63.3 + - - +
585A ILE* 3.2 12.5 - - + +
586A LEU* 3.1 27.9 + - - +
676A LEU* 5.4 6.4 - - - +
679A GLY* 5.5 14.5 - - - -
680A LEU* 5.4 3.9 - - + +
683A ILE* 6.1 0.7 - - + -
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Residues in contact with GLN 583 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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561A LYS* 3.8 26.1 - - - +
562A PHE* 3.2 48.1 + - + +
579A MET 3.0 18.5 + - - +
580A ILE* 3.9 12.8 + - - +
581A LYS 3.4 0.4 - - - -
582A TYR* 1.3 73.9 - - - +
584A ILE* 1.4 68.1 + - - +
586A LEU* 3.4 13.9 + - - +
587A ARG* 3.1 44.1 + - - +
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Residues in contact with ILE 584 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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580A ILE* 3.3 18.6 + - + +
581A LYS* 3.5 12.1 - - + +
582A TYR 3.2 0.4 - - - -
583A GLN* 1.4 85.5 - - - +
585A ILE* 1.4 64.8 + - - +
587A ARG* 3.1 15.5 + - + +
588A TYR* 3.2 48.3 + - + +
683A ILE* 4.9 6.7 - - + -
687A ARG* 5.7 9.0 - - + +
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Residues in contact with ILE 585 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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426A PHE 4.3 9.2 - - - +
427A LEU* 4.2 24.5 - - + +
581A LYS 3.3 4.9 + - - -
582A TYR* 3.2 28.3 - - + +
584A ILE* 1.4 73.7 - - - +
586A LEU* 1.3 61.2 - - - +
588A TYR* 3.4 8.8 + - + +
589A GLN* 3.1 24.0 + - + +
647A PHE* 4.7 13.1 - - + -
651A VAL* 5.6 5.2 - - + -
652A ILE* 4.1 33.7 - - + -
683A ILE* 3.5 27.1 - - + +
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Residues in contact with LEU 586 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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425A ILE 3.5 15.5 - - - +
426A PHE* 3.3 24.2 - - - +
427A LEU 4.3 2.9 - - - +
428A GLY* 3.9 14.6 - - - -
562A PHE* 3.9 40.2 - - + -
582A TYR* 3.1 22.6 + - + +
583A GLN* 3.5 8.7 - - - +
584A ILE 3.2 0.2 - - - -
585A ILE* 1.3 74.9 - - - +
587A ARG* 1.3 64.4 + - - +
589A GLN* 3.5 8.1 - - + +
590A LEU* 2.9 31.8 + - - +
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Residues in contact with ARG 587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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484A ILE* 4.4 8.3 - - - +
557A ILE* 4.0 16.6 - - + +
558A TYR 5.8 0.7 - - - +
560A LEU* 3.4 35.8 + - - +
561A LYS* 3.4 7.6 - - - -
562A PHE* 3.4 35.2 - - - +
583A GLN* 3.1 37.5 + - - +
584A ILE* 3.1 11.6 + - + +
586A LEU* 1.3 77.3 - - - +
588A TYR* 1.3 67.4 + - + +
590A LEU* 3.5 31.1 + - - +
591A VAL* 2.9 39.7 + - + +
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Residues in contact with TYR 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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584A ILE* 3.2 37.5 + - + +
585A ILE* 3.9 7.0 - - - +
587A ARG* 1.3 85.0 - - + +
589A GLN* 1.4 59.3 + - - +
591A VAL* 3.2 19.6 + - - +
592A LEU* 3.2 21.3 + - + +
647A PHE* 4.2 26.2 - + + -
683A ILE* 5.9 4.7 - - + -
686A ASN* 5.3 7.6 - - - -
687A ARG* 3.8 33.4 + - + +
690A SER 5.6 1.2 + - - -
693A ILE* 3.5 32.8 - - + +
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Residues in contact with GLN 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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427A LEU 5.8 1.2 - - - +
428A GLY* 5.0 12.1 - - - +
429A TYR* 5.8 3.6 - - - -
435A VAL* 6.2 3.1 - - + -
585A ILE* 3.1 21.1 + - + +
586A LEU* 3.5 10.8 - - + +
588A TYR* 1.4 72.8 - - - +
590A LEU* 1.3 63.2 + - - +
592A LEU* 3.2 4.4 + - - +
593A GLN* 2.9 34.2 + - + +
644A MET* 4.1 11.9 - - - -
647A PHE* 3.7 23.4 - - + -
648A ASN* 6.2 0.3 - - - +
652A ILE* 4.1 17.2 - - - +
248C MET* 5.2 6.2 - - + +
249C TYR* 3.2 31.2 + - - +
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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
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435A VAL* 3.5 31.9 - - + -
438A PHE* 4.3 14.6 - - + -
439A LEU* 3.9 22.4 - - + -
557A ILE* 6.1 3.1 - - + -
560A LEU* 4.0 17.0 - - + -
586A LEU 2.9 15.8 + - - +
587A ARG* 3.5 33.4 - - - +
589A GLN* 1.3 84.5 - - - +
591A VAL* 1.3 58.7 + - + +
593A GLN* 3.2 5.9 + - - +
594A TYR* 3.0 28.5 + - + -
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Residues in contact with VAL 591 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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557A ILE* 3.5 31.6 - - + -
587A ARG* 2.9 27.1 + - + +
588A TYR* 3.5 9.0 - - - +
589A GLN 3.2 0.4 - - - -
590A LEU* 1.3 79.9 - - + +
592A LEU* 1.4 61.7 + - + +
594A TYR* 2.9 25.9 - - + -
595A HIS* 3.2 33.7 - - + +
693A ILE* 4.3 16.6 - - + -
696A GLN* 4.1 13.5 - - - +
697A LEU* 5.8 3.6 - - + -
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Residues in contact with LEU 592 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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588A TYR* 3.2 14.6 + - + +
589A GLN* 3.2 7.4 + - - +
591A VAL* 1.4 60.0 - - + +
593A GLN* 1.3 64.8 + - - +
595A HIS* 3.5 9.6 + - + +
596A SER* 3.2 23.7 + - - -
640A ILE* 6.3 3.6 - - + -
643A ILE* 4.3 26.5 - - + -
644A MET* 3.6 31.6 - - + +
647A PHE* 4.0 39.9 - - + -
696A GLN* 4.8 20.0 - - + +
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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
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432A GLY* 4.7 5.5 + - - -
435A VAL* 3.8 20.1 - - + +
436A LEU* 3.6 31.2 - - + +
439A LEU* 4.0 2.5 - - + +
589A GLN* 2.9 21.8 + - + +
590A LEU* 3.2 10.0 + - - +
592A LEU* 1.3 77.5 - - - +
594A TYR* 1.4 62.4 + - - +
596A SER* 3.6 8.1 + - - -
597A ARG* 3.3 21.0 + - - +
644A MET* 4.8 0.4 - - - +
248C MET* 3.9 24.1 - - - +
249C TYR* 3.3 40.3 + - - +
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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
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439A LEU* 3.6 35.6 - - + +
443A MET* 6.5 0.2 - - + -
446A LEU* 6.6 0.7 - - + -
447A THR* 5.7 6.5 - - + -
557A ILE* 2.0 46.4 - - + +
590A LEU* 3.0 11.7 + - + +
591A VAL* 2.9 38.1 + - + -
592A LEU 3.4 0.2 - - - -
593A GLN* 1.4 73.9 - - - +
595A HIS* 1.4 88.5 + + - +
597A ARG* 3.2 9.9 + - - +
598A LEU* 3.1 42.9 + - + +
697A LEU* 4.5 7.0 - - + +
700A PHE* 3.5 27.0 - + - -
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Residues in contact with HIS 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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591A VAL* 3.2 21.6 + - + +
592A LEU* 3.7 11.9 - - + +
593A GLN 3.4 0.2 - - - -
594A TYR* 1.4 104.0 - + - +
596A SER* 1.3 62.1 + - - +
598A LEU* 3.4 2.3 + - - +
599A LEU* 3.0 33.0 + - + +
640A ILE* 5.3 6.7 - - + -
696A GLN* 3.2 37.3 + - - -
697A LEU* 4.8 5.6 - - + +
700A PHE* 3.1 55.8 - + + +
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Residues in contact with SER 596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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592A LEU 3.2 14.9 + - - -
593A GLN* 3.8 13.7 - - - -
594A TYR 3.3 0.2 - - - -
595A HIS* 1.3 79.0 - - - +
597A ARG* 1.4 57.4 + - - +
599A LEU* 3.3 2.1 + - - +
600A ASP* 3.1 42.4 + - - +
640A ILE* 4.2 22.8 - - - +
644A MET* 4.7 12.2 - - - +
249C TYR* 5.5 3.5 - - - -
254C SER* 4.2 9.0 + - - -
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Residues in contact with ARG 597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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436A LEU* 4.1 24.5 - - + +
439A LEU* 3.3 40.6 + - + +
440A THR* 3.6 35.4 - - - +
443A MET* 3.5 25.3 - - - +
593A GLN 3.3 9.4 + - - +
594A TYR* 3.2 11.5 + - - +
596A SER* 1.4 75.2 - - - +
598A LEU* 1.4 78.2 + - - +
600A ASP* 3.5 9.4 + - - +
601A GLU* 3.1 45.1 + - + +
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Residues in contact with LEU 598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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443A MET* 4.6 24.2 - - + -
447A THR* 6.0 0.9 - - - +
594A TYR* 3.1 41.2 + - + +
595A HIS* 3.7 7.2 - - - +
597A ARG* 1.4 96.7 - - - +
599A LEU* 1.3 60.2 + - + +
601A GLU* 3.6 9.2 + - + +
602A THR* 3.2 27.9 + - + +
700A PHE* 4.0 19.7 - - + -
704A TYR* 4.1 25.1 - - + -
707A CYS* 5.7 2.5 - - - -
711A LYS* 5.1 6.7 - - - +
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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
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595A HIS* 3.0 33.8 + - + +
596A SER 3.3 5.1 + - - +
598A LEU* 1.3 73.8 - - + +
600A ASP* 1.3 60.9 + - - +
602A THR* 2.9 20.0 + - - -
603A TRP* 3.2 48.7 - - + +
636A MET* 4.1 25.1 - - + +
637A ASN* 4.2 2.0 - - - +
640A ILE* 3.5 33.4 - - + -
700A PHE* 4.3 14.1 - - + -
703A VAL* 4.2 21.3 - - + -
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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
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596A SER* 3.1 24.2 + - - +
597A ARG* 3.8 8.7 - - - +
598A LEU 3.4 0.2 - - - -
599A LEU* 1.3 77.3 - - - +
601A GLU* 1.4 62.1 + - - +
603A TRP* 3.5 0.5 + - - -
604A MET* 3.0 26.0 + - - +
637A ASN* 3.6 9.7 + - - +
640A ILE* 5.5 0.3 - - - +
253C SER* 3.9 16.1 + - - +
254C SER* 3.1 35.2 + - - +
257C SER* 3.3 34.8 + - - +
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Residues in contact with GLU 601 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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440A THR* 5.7 2.4 - - - +
597A ARG* 3.1 36.4 + - - +
598A LEU* 3.6 6.2 + - + +
599A LEU 3.5 0.4 - - - -
600A ASP* 1.4 76.7 - - - +
602A THR* 1.4 59.7 + - + +
604A MET* 3.4 5.6 + - + +
605A ASP* 3.0 40.9 + - - +
253C SER* 5.6 1.3 - - - -
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Residues in contact with THR 602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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598A LEU* 3.2 17.0 + - + +
599A LEU* 2.9 21.1 + - - -
601A GLU* 1.4 74.4 - - + +
603A TRP* 1.4 88.1 + - - +
605A ASP* 3.4 12.6 - - - +
606A LEU* 3.3 20.4 + - - +
707A CYS* 3.9 27.0 - - + +
710A ILE* 5.4 8.5 - - - +
711A LYS* 4.2 22.4 - - + -
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Residues in contact with TRP 603 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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599A LEU* 3.2 47.0 + - + +
600A ASP 4.1 2.2 - - - +
602A THR* 1.4 99.7 + - - +
604A MET* 1.3 66.2 + - - +
605A ASP 3.1 0.2 - - - -
606A LEU* 3.2 12.2 + - + +
607A ASN* 2.9 31.2 + - - +
630A ARG* 4.8 0.2 + - - -
633A HIS* 3.4 65.1 + + + -
636A MET* 4.0 17.9 - - + -
637A ASN* 3.1 32.6 + - + +
703A VAL* 5.2 4.7 - - + -
706A PHE* 5.3 3.4 - + - -
707A CYS* 5.0 8.5 - - + -
710A ILE* 4.4 22.9 - - + -
257C SER* 4.4 15.5 - - - +
260C ILE 5.7 0.7 - - - +
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Residues in contact with MET 604 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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600A ASP 3.0 18.2 + - - +
601A GLU* 3.4 7.6 + - + +
603A TRP* 1.3 76.1 - - - +
605A ASP* 1.4 69.8 + - - +
607A ASN* 3.3 22.7 + - - +
608A LYS* 3.9 22.3 - - + +
163C PRO 4.4 6.7 - - - +
164C LYS 3.8 24.5 - - - +
165C LYS 4.2 18.2 - - - +
166C ILE* 4.2 17.0 - - + +
199C ASP* 4.3 13.2 - - - +
253C SER* 5.1 8.1 - - - +
256C TYR* 4.0 24.7 + - + +
257C SER* 5.0 0.4 + - - -
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Residues in contact with ASP 605 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
601A GLU* 3.0 30.2 - - - +
602A THR* 3.4 12.1 - - - +
603A TRP 3.1 0.4 - - - -
604A MET* 1.4 84.5 - - - +
606A LEU* 1.3 59.5 + - - +
608A LYS* 3.3 36.0 + - - +
610A PRO* 5.5 0.3 - - - +
611A SER* 3.7 8.7 + - - -
711A LYS* 5.5 5.9 - - - +
713A MET* 4.8 17.5 - - + +
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Residues in contact with LEU 606 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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602A THR 3.3 10.0 + - - +
603A TRP* 3.2 16.7 + - + +
605A ASP* 1.3 75.9 - - - +
607A ASN* 1.4 61.4 + - - +
611A SER* 3.3 22.6 + - - +
612A TRP* 3.3 15.0 - - + -
626A VAL* 6.5 0.9 - - + -
629A THR* 4.6 24.5 - - + +
630A ARG* 3.1 38.4 + - + +
633A HIS* 3.7 24.0 - - + -
710A ILE* 4.1 24.5 - - + -
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Residues in contact with ASN 607 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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603A TRP* 2.9 20.2 + - - +
604A MET 3.4 9.2 - - - +
605A ASP 3.3 0.4 - - - -
606A LEU* 1.4 76.6 - - - +
608A LYS* 1.4 56.2 - - + +
612A TRP* 3.2 5.7 + - - -
630A ARG* 3.3 21.2 - - - +
633A HIS* 5.0 1.4 + - - -
199C ASP* 5.4 2.0 - - - +
256C TYR* 3.4 38.9 - - - +
257C SER* 5.8 0.3 - - - -
260C ILE* 4.1 11.5 + - - +
261C PRO* 3.6 4.4 - - - +
262C SER* 3.5 25.3 - - - +
263C PRO* 3.2 35.6 - - + +
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Residues in contact with LYS 608 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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604A MET* 3.9 24.0 - - + +
605A ASP* 3.3 31.3 + - - +
606A LEU 3.3 0.4 - - - -
607A ASN* 1.4 75.0 - - + +
609A THR* 1.4 55.5 + - - +
610A PRO* 3.6 11.7 - - + -
611A SER* 3.1 13.5 + - - -
612A TRP* 2.8 25.6 + - - -
163C PRO* 2.8 47.5 + - + +
164C LYS* 4.0 8.5 + - - +
199C ASP* 4.3 16.6 - - - +
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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
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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) + - + + + + + -
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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