Contacts of the helix formed by residues 574 - 600 (chain A) in PDB entry 1F7U
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 THR 574 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573A GLN* 1.3 79.1 + - - +
575A GLU* 1.3 65.1 + - - +
576A GLU* 3.6 14.1 + - + +
577A LEU* 3.2 25.1 + - + +
578A ALA* 3.0 21.2 + - - +
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Residues in contact with GLU 575 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
506A ILE* 4.3 11.7 - - + +
510A LYS* 4.2 22.2 + - - +
573A GLN 3.8 1.4 + - - -
574A THR* 1.3 72.7 - - - +
576A GLU* 1.3 56.4 + - + +
578A ALA* 3.9 5.5 - - - +
579A THR* 2.7 44.9 + - - +
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Residues in contact with GLU 576 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
515A ASP* 3.4 22.2 + - + +
518A LEU* 3.3 31.6 - - + +
574A THR* 3.2 14.0 + - - +
575A GLU* 1.3 83.3 - - + +
577A LEU* 1.3 64.4 + - + +
579A THR* 3.5 5.3 + - - -
580A ALA* 3.2 22.7 + - - +
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Residues in contact with LEU 577 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
518A LEU* 3.6 41.3 - - + +
521A GLU* 5.1 2.0 - - - +
573A GLN* 3.6 28.0 - - + +
574A THR* 3.2 18.6 + - + +
576A GLU* 1.3 79.5 - - + +
578A ALA* 1.3 61.2 + - - +
580A ALA* 3.4 1.0 + - + -
581A ARG* 2.8 68.6 + - + +
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Residues in contact with ALA 578 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
503A ALA* 6.3 0.2 - - + -
506A ILE* 4.0 15.3 - - + -
570A VAL* 3.3 36.1 - - + +
573A GLN* 4.2 5.3 - - + +
574A THR 3.0 17.6 + - - +
575A GLU* 3.9 4.9 - - - +
577A LEU* 1.3 76.6 - - - +
579A THR* 1.3 59.1 + - - +
581A ARG* 4.8 0.2 - - - -
582A LEU* 2.9 35.8 + - - +
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Residues in contact with THR 579 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
506A ILE* 3.7 21.2 - - + +
510A LYS* 3.4 42.3 - - + +
511A TRP* 4.0 2.8 - - - +
514A ALA* 3.7 13.0 - - + -
575A GLU* 2.7 29.5 + - - +
576A GLU* 3.8 7.1 - - - -
578A ALA* 1.3 78.6 - - - +
580A ALA* 1.3 56.4 + - - +
582A LEU* 3.4 5.9 + - - +
583A ALA* 3.0 27.2 + - - +
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Residues in contact with ALA 580 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
514A ALA* 3.7 13.6 - - + +
515A ASP 3.7 23.8 - - - +
516A PHE* 5.1 0.9 - - - +
518A LEU* 4.1 12.1 - - + -
519A LEU* 3.7 24.0 - - + +
576A GLU 3.2 15.5 + - - +
577A LEU 3.8 4.5 - - - +
578A ALA 3.3 0.2 - - - -
579A THR* 1.3 80.6 - - - +
581A ARG* 1.3 56.8 + - + +
583A ALA* 3.3 4.2 + - - +
584A LEU* 3.1 22.0 + - - +
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Residues in contact with ARG 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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518A LEU 5.0 0.4 - - - -
519A LEU* 4.2 16.6 - - + -
521A GLU* 3.0 28.4 + - - -
567A VAL 4.7 2.6 + - - -
568A LEU* 3.7 29.1 - - - +
569A TRP* 3.0 43.6 + - - +
570A VAL* 4.1 15.5 - - + -
573A GLN* 3.6 19.8 + - - +
577A LEU* 2.8 52.0 + - + +
578A ALA 4.2 1.3 - - - +
580A ALA* 1.3 74.3 - - - +
582A LEU* 1.3 60.9 + - - +
584A LEU* 3.2 3.9 + - + +
585A TYR* 2.9 42.3 + - + -
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Residues in contact with LEU 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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499A VAL* 4.5 4.7 - - + +
500A GLU* 4.2 24.7 - - + +
503A ALA* 4.0 17.5 - - + +
506A ILE* 3.7 37.7 - - + +
511A TRP* 3.7 37.3 - - + +
570A VAL* 3.6 24.1 - - + +
578A ALA 2.9 21.9 + - - +
579A THR 3.6 4.7 - - - +
581A ARG* 1.3 76.0 - - - +
583A ALA* 1.3 54.1 + - - +
585A TYR* 4.1 2.9 - - + +
586A GLY* 2.7 33.3 + - - -
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Residues in contact with ALA 583 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ILE* 3.8 10.8 - - + +
128A LEU* 4.2 2.8 - - - +
511A TRP* 3.6 38.3 - - + +
516A PHE* 3.9 17.0 - - + -
579A THR 3.0 14.7 + - - +
580A ALA* 3.4 10.8 - - - +
581A ARG 3.2 0.2 - - - -
582A LEU* 1.3 76.5 - - - +
584A LEU* 1.3 56.4 + - - +
586A GLY* 3.8 0.5 - - - -
587A ALA* 3.0 30.1 + - - +
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Residues in contact with LEU 584 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ILE* 4.1 11.1 - - + +
519A LEU* 3.9 19.5 - - + -
524A ALA* 3.9 32.3 - - + +
527A LEU* 3.6 25.8 - - + -
528A ILE* 3.7 24.0 - - + -
531A LEU* 3.8 18.8 - - + +
568A LEU* 4.9 7.0 - - + -
580A ALA 3.1 14.0 + - - +
581A ARG* 3.2 8.9 + - + +
583A ALA* 1.3 76.5 - - - +
585A TYR* 1.3 66.5 + - + +
587A ALA* 3.2 4.6 + - - +
588A ALA* 3.0 22.7 + - - +
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Residues in contact with TYR 585 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
496A LEU* 3.7 31.6 - - + +
499A VAL* 4.9 10.5 - - + -
500A GLU* 5.3 2.9 - - + -
527A LEU* 4.8 9.6 - - + -
561A VAL* 4.2 15.0 - - + -
564A CYS* 3.0 40.4 + - + -
565A TYR* 3.3 11.2 + + + -
568A LEU* 2.6 39.6 + - + +
570A VAL* 3.7 23.6 - - + -
581A ARG* 2.9 32.5 + - + +
582A LEU* 4.1 4.5 - - + +
584A LEU* 1.3 77.0 - - + +
586A GLY* 1.3 59.4 + - - +
588A ALA* 3.3 4.8 + - - +
589A ARG* 2.9 29.3 + - - +
935B C 4.4 4.7 - - - -
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Residues in contact with GLY 586 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LEU* 4.1 7.9 - - - +
500A GLU* 4.0 13.6 - - - +
511A TRP* 3.9 19.1 - - - -
582A LEU 2.7 23.0 + - - -
583A ALA 3.9 0.7 - - - -
585A TYR* 1.3 74.0 - - - +
587A ALA* 1.3 60.3 + - - +
589A ARG* 3.4 5.7 + - - +
590A GLN* 3.1 22.7 + - - +
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Residues in contact with ALA 587 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ILE* 4.3 11.0 - - + -
127A ILE* 3.6 21.7 - - + +
128A LEU* 3.8 13.6 - - + +
531A LEU* 3.8 19.5 - - + -
583A ALA 3.0 17.7 + - - +
584A LEU 3.2 4.7 + - - +
586A GLY* 1.3 73.4 - - - +
588A ALA* 1.3 66.3 + - - +
590A GLN* 3.2 3.3 + - - +
591A VAL* 3.1 27.5 + - - +
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Residues in contact with ALA 588 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
496A LEU* 4.6 3.1 - - + -
527A LEU* 4.2 8.5 - - + -
531A LEU* 3.5 21.5 - - + +
557A LEU* 4.0 5.0 - - + +
561A VAL* 3.8 28.5 - - + -
584A LEU 3.0 13.4 + - - +
585A TYR* 3.3 11.9 + - - +
587A ALA* 1.3 77.9 - - - +
589A ARG* 1.3 61.7 + - - +
591A VAL* 3.3 2.8 + - - +
592A LEU* 3.0 23.2 + - - +
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Residues in contact with ARG 589 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
493A HIS* 3.1 37.3 + - + -
496A LEU* 3.8 25.3 - - + +
497A ARG* 3.4 46.3 - - - +
500A GLU* 2.9 28.2 + - - +
508A GLN* 5.5 4.4 + - - -
585A TYR 2.9 16.4 + - - +
586A GLY 3.7 5.1 + - - +
588A ALA* 1.3 76.2 - - - +
590A GLN* 1.3 77.9 + - - +
592A LEU* 3.2 4.5 + - - +
593A TYR* 2.8 47.6 + - - +
605A GLU* 5.1 1.6 + - - -
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Residues in contact with GLN 590 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ILE* 3.7 19.3 - - + +
128A LEU* 5.1 4.4 - - + +
131A LYS* 3.5 50.6 - - - +
132A GLU* 3.6 4.4 + - - +
586A GLY 3.1 13.6 + - - +
587A ALA* 3.2 8.5 + - - +
589A ARG* 1.3 96.4 + - - +
591A VAL* 1.3 56.3 + - - +
593A TYR* 3.3 19.1 + - - +
594A ASN* 2.8 59.8 + - - +
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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
----------------------------------------------------------
127A ILE* 3.7 26.7 - - + -
134A TYR* 4.0 15.5 - - + -
531A LEU* 4.0 9.2 - - + +
534A TYR* 3.7 25.7 - - + -
553A TYR* 3.6 24.5 - - + +
554A LEU* 4.6 0.9 - - - +
557A LEU* 3.8 11.2 - - + -
587A ALA 3.1 14.6 + - - +
588A ALA 3.8 6.1 - - - +
590A GLN* 1.3 73.0 - - - +
592A LEU* 1.3 67.2 + - - +
594A ASN* 3.2 8.9 + - - +
595A GLY* 2.9 21.1 + - - -
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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
----------------------------------------------------------
489A LEU* 3.8 10.8 - - + +
492A ALA* 4.1 2.9 - - + -
493A HIS* 3.6 41.3 - - + +
496A LEU* 4.5 9.2 - - + -
554A LEU* 4.0 18.5 - - + +
557A LEU* 3.9 11.6 - - + +
558A THR* 3.6 31.0 - - + -
588A ALA 3.0 14.3 + - - +
589A ARG 3.5 6.1 - - - +
591A VAL* 1.3 76.0 - - - +
593A TYR* 1.3 59.3 + - - +
595A GLY* 3.3 1.7 + - - -
596A MET* 2.8 56.7 + - + +
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Residues in contact with TYR 593 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A GLU* 5.2 11.0 - - + -
493A HIS* 3.8 18.8 - + - +
589A ARG* 2.8 36.3 + - - +
590A GLN* 3.4 23.6 - - - +
592A LEU* 1.3 74.1 - - - +
594A ASN* 1.3 68.5 + - - +
596A MET* 3.7 1.0 - - - +
597A ARG* 2.9 69.4 + - + +
603A PRO* 3.7 33.4 - - + -
605A GLU* 6.0 1.3 - - - -
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Residues in contact with ASN 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A LYS 2.8 24.4 + - - -
132A GLU* 3.3 20.4 + - - +
134A TYR* 3.9 14.5 - - - +
135A GLY 5.0 0.4 - - - +
178A LYS* 6.4 0.9 - - - -
534A TYR* 3.6 20.4 + - + +
590A GLN* 2.8 47.8 + - - +
591A VAL* 3.5 10.6 - - - +
593A TYR* 1.3 78.2 - - - +
595A GLY* 1.3 56.4 + - - +
597A ARG* 3.4 4.7 + - - +
598A LEU* 2.9 28.9 + - - +
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Residues in contact with GLY 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
534A TYR* 3.3 18.3 + - - -
550A VAL* 4.3 4.3 - - - +
554A LEU* 3.8 19.1 - - - -
591A VAL 2.9 14.2 + - - -
592A LEU 3.7 1.6 - - - -
594A ASN* 1.3 73.6 - - - +
596A MET* 1.3 66.0 + - - +
598A LEU* 3.2 5.3 + - - +
599A LEU* 3.1 27.2 + - - +
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Residues in contact with MET 596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
489A LEU* 4.0 20.9 - - + +
490A GLN* 3.5 39.7 - - + +
493A HIS* 4.5 3.6 - - - -
554A LEU* 3.9 9.8 - - + +
592A LEU* 2.8 51.1 + - + +
593A TYR 3.7 3.6 - - - +
595A GLY* 1.3 71.2 - - - +
597A ARG* 1.3 60.7 + - - +
599A LEU* 3.2 10.0 + - - +
600A GLY 3.2 0.3 + - - -
601A LEU* 3.0 55.0 + - + +
603A PRO* 3.8 24.7 - - + -
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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
----------------------------------------------------------
132A GLU* 6.0 3.6 - - - +
174A ASN* 3.5 10.2 + - - -
285A ASN* 6.3 0.4 - - - -
593A TYR* 2.9 60.9 + - + +
594A ASN* 3.7 5.6 - - - +
596A MET* 1.3 75.2 - - - +
598A LEU* 1.3 63.1 + - - +
600A GLY* 3.1 11.8 + - - -
601A LEU 3.7 10.1 - - - -
602A THR* 5.5 1.3 - - - +
603A PRO* 4.0 17.9 - - + -
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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
----------------------------------------------------------
171A PHE* 3.8 31.4 - - + -
174A ASN* 3.0 62.0 + - + +
175A LEU* 3.6 10.3 - - + +
178A LYS* 4.3 18.8 - - + -
534A TYR* 4.0 5.6 - - - +
538A LEU* 3.3 33.2 - - + -
550A VAL* 4.1 8.7 - - + -
594A ASN 2.9 14.3 + - - +
595A GLY* 3.4 9.9 - - - +
596A MET 3.2 0.2 - - - -
597A ARG* 1.3 78.2 - - - +
599A LEU* 1.3 57.0 + - - +
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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
----------------------------------------------------------
167A ILE 4.6 1.9 - - - +
171A PHE* 3.7 33.6 + - + +
174A ASN* 4.7 0.4 - - - -
459A MET* 3.3 16.6 - - - +
460A ILE* 4.1 14.6 - - + -
463A MET* 3.5 32.3 - - + +
547A PRO* 4.0 17.0 - - + +
550A VAL* 4.1 7.4 - - + -
551A VAL* 3.6 22.2 - - + -
554A LEU* 3.8 26.0 - - + -
595A GLY 3.1 12.8 + - - +
596A MET* 3.2 8.9 + - - +
598A LEU* 1.3 76.1 - - - +
600A GLY* 1.3 57.7 + - - +
601A LEU* 4.5 7.6 - - + -
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Residues in contact with GLY 600 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
170A GLY 6.2 0.7 - - - -
171A PHE 6.1 0.2 - - - -
174A ASN* 4.4 8.3 - - - -
284A LEU 4.0 6.6 - - - +
285A ASN* 2.9 30.6 + - - +
455A ILE* 5.7 0.5 - - - +
459A MET* 3.6 19.0 - - - +
597A ARG 3.1 13.5 + - - -
598A LEU 3.2 0.6 - - - -
599A LEU* 1.3 80.2 - - - +
601A LEU* 1.3 60.5 + - - +
----------------------------------------------------------
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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