Contacts of the helix formed by residues 524 - 556 (chain B) in PDB entry 6UZA
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 GLU 524 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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520B GLU 4.8 0.8 + - - +
521B TYR 3.8 4.4 + - - +
522B LEU* 3.8 7.8 - - - +
523B PHE* 1.3 77.8 - - - +
525B LEU* 1.3 65.1 + - - +
526B TRP* 3.3 4.7 - - + +
527B ASN* 3.4 36.7 + - - +
528B MET* 3.9 2.8 + - - +
1003B S9Y 6.1 4.0 - - - -
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Residues in contact with LEU 525 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
522B LEU 4.5 8.5 - - - +
523B PHE 4.5 9.0 - - - +
524B GLU* 1.3 72.0 - - - +
526B TRP* 1.3 61.0 + - + +
527B ASN 3.2 0.2 - - - -
528B MET* 3.1 14.5 + - + +
529B LEU* 3.0 25.2 + - - +
635B PHE* 6.5 1.6 - - + -
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Residues in contact with TRP 526 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
524B GLU* 3.3 3.2 - - + +
525B LEU* 1.3 77.3 - - + +
527B ASN* 1.3 62.2 + - - +
529B LEU* 3.7 32.9 - - + +
530B ASP* 2.9 27.3 + - + +
608B SER* 3.4 37.9 + - - -
609B ARG* 5.8 0.4 - - - +
611B ALA* 3.7 14.5 - - + +
612B TYR* 3.5 35.2 + + - +
1003B S9Y 3.7 83.6 - - + -
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Residues in contact with ASN 527 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509B GLU* 3.8 1.2 - - - +
512B GLU* 4.4 10.9 + - - -
521B TYR* 3.3 63.0 + - + +
522B LEU* 5.5 0.4 - - + -
524B GLU* 3.4 21.3 + - - +
525B LEU 3.2 0.6 - - - -
526B TRP* 1.3 80.7 - - - +
528B MET* 1.3 56.0 + - - +
530B ASP* 3.4 5.4 + - - -
531B PHE* 2.9 29.3 + - - +
612B TYR* 3.8 9.4 + - - -
1002B R0G 4.3 12.7 + - - +
1003B S9Y 5.5 2.4 - - - -
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Residues in contact with MET 528 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
521B TYR* 6.1 0.2 - - - -
522B LEU* 5.7 11.8 - - + +
524B GLU 3.9 1.9 + - - +
525B LEU* 3.1 17.9 + - + +
527B ASN* 1.3 78.3 - - - +
529B LEU* 1.3 59.0 + - - +
531B PHE* 3.8 8.1 - - - +
532B GLY* 2.9 26.7 + - - -
1001C Y01 4.5 9.9 - - + +
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Residues in contact with LEU 529 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
525B LEU 3.0 12.7 + - - +
526B TRP* 3.3 40.8 + - + +
528B MET* 1.3 75.5 - - - +
530B ASP* 1.3 59.9 + - - +
532B GLY* 4.0 0.5 + - - -
533B MET* 3.7 18.4 + - - +
605B LEU* 4.4 13.1 - - + +
608B SER* 3.4 31.6 - - - +
1003B S9Y 6.2 0.7 - - + -
1001C Y01 3.9 31.0 - - + +
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Residues in contact with ASP 530 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509B GLU* 3.5 9.7 - - - +
526B TRP* 2.9 17.8 + - + +
527B ASN 3.8 4.0 - - - +
528B MET 3.2 0.2 - - - -
529B LEU* 1.3 78.1 - - - +
531B PHE* 1.3 62.3 + - - +
533B MET* 3.6 10.7 + - - +
534B LEU* 3.5 25.2 + - - +
609B ARG* 2.6 56.5 + - - +
612B TYR* 3.8 13.1 - - + +
1002B R0G 4.1 16.1 + - - +
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Residues in contact with PHE 531 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509B GLU* 4.4 13.0 + - + -
510B CYS* 6.3 2.0 - - - -
513B ILE* 5.2 11.7 - - + -
521B TYR* 3.8 19.5 - + + +
527B ASN 2.9 17.7 + - - +
528B MET* 3.3 8.2 + - - +
530B ASP* 1.3 75.7 - - - +
532B GLY* 1.3 61.5 + - - +
534B LEU* 3.4 9.6 + - + +
535B ALA* 3.0 40.1 + - + +
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Residues in contact with GLY 532 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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528B MET 2.9 15.4 + - - -
529B LEU 4.0 1.1 + - - -
530B ASP 3.4 0.2 - - - -
531B PHE* 1.3 80.0 - - - +
533B MET* 1.3 56.2 + - - +
535B ALA* 3.4 6.9 + - - +
536B ILE* 2.9 39.5 + - - +
1001C Y01 4.4 18.8 - - - -
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Residues in contact with MET 533 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453B PHE* 5.4 1.6 - - + -
505B MET* 4.7 4.9 - - - +
529B LEU 3.7 12.3 + - - +
530B ASP* 3.6 17.2 + - - +
531B PHE 3.3 0.4 - - - -
532B GLY* 1.3 77.0 - - - +
534B LEU* 1.3 69.4 + - + +
536B ILE* 3.3 4.6 + - - +
537B PHE* 2.9 49.9 + - + +
602B ALA* 3.9 11.1 - - - +
605B LEU* 4.0 23.0 - - + +
606B SER* 3.9 34.5 - - - +
608B SER* 5.7 0.4 - - - +
609B ARG* 3.7 37.0 - - + +
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Residues in contact with LEU 534 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
502B VAL* 4.3 14.6 - - + -
505B MET* 3.5 60.3 - - + +
506B ILE* 3.9 22.2 - - + +
509B GLU* 4.1 14.4 - - + +
530B ASP* 3.5 28.0 + - - +
531B PHE* 3.4 11.6 + - + +
532B GLY 3.3 0.2 - - - -
533B MET* 1.3 83.8 - - - +
535B ALA* 1.3 61.0 + - - +
537B PHE* 3.7 5.4 - - + +
538B ALA* 2.9 29.8 + - - +
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Residues in contact with ALA 535 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
531B PHE* 3.0 31.4 + - + +
532B GLY* 3.7 8.7 - - - +
533B MET 3.3 0.2 - - - -
534B LEU* 1.3 76.4 - - - +
536B ILE* 1.3 58.7 + - + +
538B ALA* 3.4 6.3 + - - +
539B ALA* 3.0 28.9 + - - +
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Residues in contact with ILE 536 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
532B GLY 2.9 21.3 + - - +
533B MET* 3.8 4.7 - - - +
535B ALA* 1.3 74.3 - - + +
537B PHE* 1.3 61.0 + - - +
539B ALA* 3.4 6.6 + - - +
540B SER* 3.0 28.6 + - - -
598B LEU* 3.3 41.6 - - + +
601B ILE* 4.1 14.6 - - + -
602B ALA* 3.9 11.9 - - + +
605B LEU* 4.1 22.9 - - + -
1001C Y01 4.2 31.0 - - + -
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Residues in contact with PHE 537 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
453B PHE* 4.1 24.2 - + - -
457B LEU* 4.2 13.5 - - + -
498B ILE* 4.6 4.9 - - + -
502B VAL* 3.9 23.8 - - + -
533B MET* 2.9 41.2 + - - +
534B LEU* 3.7 5.6 - - + +
536B ILE* 1.3 76.2 - - - +
538B ALA* 1.3 57.3 + - - +
540B SER* 3.3 4.6 + - - -
541B PHE* 3.0 57.2 + + + -
599B TYR* 3.8 28.3 - + - -
602B ALA* 3.7 39.5 - - + -
603B VAL 4.3 1.1 - - - -
606B SER* 4.2 2.5 - - - -
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Residues in contact with ALA 538 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
502B VAL* 4.9 2.4 - - - +
506B ILE* 4.5 15.5 - - + -
534B LEU 2.9 17.9 + - - +
535B ALA* 3.7 7.4 - - - +
536B ILE 3.3 0.2 - - - -
537B PHE* 1.3 77.1 - - - +
539B ALA* 1.3 57.9 + - - +
541B PHE* 3.4 5.9 + - - +
542B ILE* 2.9 44.2 + - + +
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Residues in contact with ALA 539 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
535B ALA 3.0 16.9 + - - +
536B ILE* 3.8 6.3 - - - +
537B PHE 3.3 0.2 - - - -
538B ALA* 1.3 75.4 - - - +
540B SER* 1.3 57.4 + - - +
542B ILE* 3.8 9.5 - - - +
543B ALA* 3.0 30.3 + - - +
598B LEU* 3.9 19.7 - - + +
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Residues in contact with SER 540 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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536B ILE 3.0 17.2 + - - -
537B PHE* 3.6 7.6 - - - -
538B ALA 3.3 0.2 - - - -
539B ALA* 1.3 77.4 - - - +
541B PHE* 1.3 61.9 + - - +
543B ALA 3.4 1.2 + - - -
544B ARG* 3.0 24.9 + - - +
595B SER* 3.0 41.3 + - - +
598B LEU* 4.0 12.7 - - - +
599B TYR* 3.6 21.6 - - - +
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Residues in contact with PHE 541 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
491B PHE* 4.8 11.9 - + + -
495B GLU* 4.8 7.4 - - + -
498B ILE* 3.8 24.2 - - + -
499B ILE* 3.9 44.2 - - + -
502B VAL* 4.1 20.0 - - + -
537B PHE* 3.0 47.6 + + + +
538B ALA* 4.0 5.4 - - - +
540B SER* 1.3 77.5 - - - +
542B ILE* 1.3 60.2 + - + +
544B ARG* 3.8 10.1 - - - +
545B PHE* 2.9 29.6 + - - +
599B TYR* 4.7 15.0 - + - -
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Residues in contact with ILE 542 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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538B ALA* 2.9 30.2 + - + +
539B ALA* 3.8 8.3 - - - +
541B PHE* 1.3 76.4 - - + +
543B ALA* 1.3 57.6 + - - +
545B PHE* 3.3 10.6 + - + +
546B MET* 3.0 44.7 + - + +
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Residues in contact with ALA 543 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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539B ALA 3.0 17.2 + - - +
540B SER 3.8 4.0 - - - +
542B ILE* 1.3 79.2 - - - +
544B ARG* 1.3 57.4 + - - +
546B MET* 3.3 14.5 - - - +
547B ALA* 3.0 28.2 + - - +
591B PRO* 3.6 24.5 - - + +
594B ILE* 4.5 12.8 - - + -
595B SER* 4.1 9.9 - - - +
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Residues in contact with ARG 544 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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488B THR 3.2 21.1 + - - -
489B SER* 3.9 12.3 + - - +
490B CYS 3.3 21.0 + - - -
491B PHE* 3.8 32.5 - - + +
492B SER 5.6 0.6 - - - +
495B GLU* 5.6 6.2 - - - +
540B SER* 3.0 16.9 + - - +
541B PHE* 3.9 13.7 - - + +
543B ALA* 1.3 76.3 - - - +
545B PHE* 1.3 57.8 + - - +
547B ALA* 3.3 6.6 + - - +
548B PHE* 3.0 27.9 + - - +
592B GLN* 3.8 24.3 - - - +
595B SER* 3.8 18.9 + - - +
596B GLU* 5.1 5.9 + - - +
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Residues in contact with PHE 545 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
491B PHE* 4.3 16.8 - + + -
541B PHE 2.9 18.9 + - - +
542B ILE* 3.7 10.8 - - + +
544B ARG* 1.3 77.9 - - - +
546B MET* 1.3 61.5 + - + +
548B PHE* 3.3 18.8 + + - +
549B TRP* 2.9 44.2 + + + +
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Residues in contact with MET 546 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
542B ILE* 3.0 31.9 + - + +
543B ALA* 3.3 15.5 - - - +
545B PHE* 1.3 78.3 - - + +
547B ALA* 1.3 62.5 + - - +
549B TRP* 3.6 11.0 - - + +
550B HIS* 3.0 47.9 + - + +
591B PRO* 4.0 17.3 - - + -
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Residues in contact with ALA 547 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
485B ARG* 4.9 8.0 + - - +
489B SER* 4.1 3.5 + - - +
543B ALA 3.0 17.2 + - - +
544B ARG* 3.6 6.3 - - - +
545B PHE 3.3 0.2 - - - -
546B MET* 1.3 77.9 - - - +
548B PHE* 1.3 56.4 + - - +
550B HIS* 3.4 5.9 + - - +
551B ALA* 3.0 28.2 + - - +
579B TYR* 5.4 1.4 - - - -
591B PRO* 3.8 22.4 - - + -
592B GLN* 3.8 28.0 - - + +
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Residues in contact with PHE 548 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
486B MET* 4.2 19.1 - - + -
489B SER* 3.7 35.8 - - - +
490B CYS* 4.4 14.8 - - + -
491B PHE* 4.8 11.9 - + + -
544B ARG 3.0 16.7 + - - +
545B PHE* 3.7 20.9 - + - +
547B ALA* 1.3 75.2 - - - +
549B TRP* 1.3 60.5 + - - +
551B ALA* 3.4 3.0 + - + +
552B SER* 2.9 48.1 + - - -
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Residues in contact with TRP 549 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
545B PHE* 2.9 35.4 + + + +
546B MET* 3.6 11.9 - - + +
547B ALA 3.2 0.2 - - - -
548B PHE* 1.3 78.1 - - - +
550B HIS* 1.3 92.9 + + - +
552B SER* 3.4 6.3 + - - -
553B LYS* 2.9 62.7 + - + +
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Residues in contact with HIS 550 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
546B MET* 3.0 33.0 + - + +
547B ALA* 3.8 5.2 - - - +
549B TRP* 1.3 107.8 - + - +
551B ALA* 1.3 57.4 + - - +
553B LYS* 3.8 15.4 + - - +
554B ALA* 3.0 31.4 + - - +
579B TYR* 3.4 23.1 + - + +
591B PRO* 5.0 11.4 - - + +
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Residues in contact with ALA 551 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483B LEU* 4.8 3.0 - - + +
485B ARG* 3.5 35.4 - - + +
486B MET* 3.6 10.8 - - + +
489B SER* 5.4 0.7 - - - -
547B ALA 3.0 18.5 + - - +
548B PHE* 3.7 8.5 - - + +
550B HIS* 1.3 76.4 - - - +
552B SER* 1.3 56.5 + - - +
554B ALA* 3.5 2.6 + - - +
555B GLN* 2.9 30.3 + - - +
579B TYR* 4.3 13.4 - - + -
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Residues in contact with SER 552 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
486B MET* 3.4 18.8 - - - +
548B PHE* 2.9 34.6 + - - -
549B TRP* 3.9 7.9 - - - -
551B ALA* 1.3 73.0 - - - +
553B LYS* 1.3 61.1 + - - +
555B GLN* 3.7 4.4 + - - +
556B SER* 2.9 31.7 + - - -
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Residues in contact with LYS 553 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
549B TRP* 2.9 57.5 + - + +
550B HIS* 3.8 14.1 + - - +
552B SER* 1.3 76.4 - - - +
554B ALA* 1.3 58.9 + - - +
556B SER* 3.3 19.7 + - - -
557B ILE* 4.2 8.7 - - - +
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Residues in contact with ALA 554 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
483B LEU* 4.6 2.5 - - + -
550B HIS 3.0 16.8 + - - +
551B ALA 4.0 3.1 - - - +
553B LYS* 1.3 76.6 - - - +
555B GLN* 1.3 61.0 + - - +
556B SER 3.3 0.2 - - - -
557B ILE* 3.6 13.6 + - - +
558B ILE 3.9 1.9 + - - -
575B ASN 4.1 13.0 - - - +
576B VAL* 3.8 23.7 - - + +
579B TYR* 3.6 32.8 - - + -
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Residues in contact with GLN 555 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
481B LYS 4.7 10.9 + - - -
482B GLN* 4.8 7.7 - - - +
483B LEU* 3.8 28.9 - - + +
486B MET* 3.9 30.0 - - + +
551B ALA 2.9 19.8 + - - +
552B SER* 3.2 5.0 + - - +
554B ALA* 1.3 74.2 - - - +
556B SER* 1.3 64.6 + - - +
557B ILE 3.2 2.2 - - - -
558B ILE 3.0 34.0 + - - +
559B ASP* 3.9 8.8 + - - +
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Residues in contact with SER 556 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
552B SER 2.9 16.1 + - - -
553B LYS* 3.3 13.6 + - - -
554B ALA 3.3 0.2 - - - -
555B GLN* 1.3 80.7 + - - +
557B ILE* 1.3 66.9 + - - +
559B ASP* 4.4 9.1 + - - +
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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