Contacts of the helix formed by residues 566 - 602 (chain B) in PDB entry 1FU1
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 VAL 566 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
562B PHE* 3.3 37.4 + - + +
563B GLU* 4.0 7.6 - - - +
564B LYS 3.3 0.2 - - - -
565B CAS 1.3 99.0 + - + +
567B SER* 1.3 55.1 + - - +
569B LYS* 5.9 3.1 - - - +
570B GLU* 2.3 60.8 + - + +
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Residues in contact with SER 567 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563B GLU 3.2 13.8 + - - -
564B LYS* 3.3 10.0 + - - -
565B CAS 3.3 0.6 - - - -
566B VAL* 1.3 76.5 - - - +
568B ALA* 1.3 65.3 + - - +
570B GLU* 3.7 14.7 + - - +
571B ALA* 3.0 21.5 + - - +
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Residues in contact with ALA 568 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
564B LYS 3.0 12.6 + - - +
565B CAS 2.9 15.3 + - - +
567B SER* 1.3 76.0 - - - +
569B LYS* 1.3 59.4 + - - +
571B ALA* 2.8 22.4 + - - +
572B LEU* 3.0 18.2 + - + +
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Residues in contact with LYS 569 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LYS* 3.3 28.3 - - - +
565B CAS 2.8 53.8 + - + +
566B VAL* 3.9 4.3 + - - +
568B ALA* 1.3 68.4 - - - +
570B GLU* 1.3 67.1 + - - +
571B ALA 2.8 6.4 + - - -
572B LEU* 4.3 12.8 - - + +
573B GLU* 2.9 53.5 + - + +
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Residues in contact with GLU 570 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
566B VAL* 2.3 51.5 + - + +
567B SER* 3.7 15.7 + - - +
569B LYS* 1.3 75.4 - - - +
571B ALA* 1.3 55.7 + - - +
573B GLU* 4.3 4.0 - - - +
574B THR* 2.9 27.4 + - - +
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Residues in contact with ALA 571 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567B SER 3.0 10.5 + - - +
568B ALA* 2.8 13.2 + - - +
570B GLU* 1.3 77.5 - - - +
572B LEU* 1.3 66.4 + - - +
573B GLU 3.1 1.6 - - - -
574B THR* 3.0 16.0 + - - -
575B ASP* 3.2 17.4 + - - +
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Residues in contact with LEU 572 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
568B ALA* 3.0 16.6 + - + +
569B LYS* 4.0 11.4 - - + +
571B ALA* 1.3 75.5 - - - +
573B GLU* 1.3 62.7 + - - +
575B ASP* 3.3 13.5 + - + +
576B LEU* 3.1 22.4 + - - +
----------------------------------------------------------
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Residues in contact with GLU 573 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A LYS* 4.8 5.3 + - - -
569B LYS* 2.9 52.5 + - + +
570B GLU* 4.4 4.0 - - - +
572B LEU* 1.3 75.9 - - - +
574B THR* 1.3 55.0 + - - +
576B LEU* 2.9 16.7 + - + +
577B TYR* 2.7 39.8 + - + +
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Residues in contact with THR 574 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570B GLU* 2.9 21.1 + - - +
571B ALA* 3.0 9.9 + - - -
573B GLU* 1.3 77.1 - - - +
575B ASP* 1.3 58.1 + - - +
577B TYR* 3.6 11.0 - - + +
578B LYS* 2.8 51.7 + - + +
----------------------------------------------------------
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Residues in contact with ASP 575 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
571B ALA* 3.2 15.0 + - - +
572B LEU* 3.5 15.7 - - + +
573B GLU 3.1 0.6 - - - -
574B THR* 1.3 77.1 - - - +
576B LEU* 1.3 59.3 + - - +
577B TYR 3.0 0.5 + - - -
578B LYS* 3.1 11.0 + - - +
579B ARG* 2.8 34.9 + - - +
----------------------------------------------------------
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Residues in contact with LEU 576 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572B LEU 3.1 10.4 + - - +
573B GLU* 3.2 18.8 - - + +
575B ASP* 1.3 78.8 - - - +
577B TYR* 1.3 58.8 + - - +
579B ARG* 3.8 7.4 - - + +
580B PHE* 3.5 18.2 + - - +
----------------------------------------------------------
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Residues in contact with TYR 577 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
573B GLU* 2.7 21.9 + - + +
574B THR* 3.6 12.3 - - + +
576B LEU* 1.3 72.2 - - - +
578B LYS* 1.3 74.2 + - + +
579B ARG 3.1 1.6 - - - -
580B PHE* 3.2 13.4 + + + +
581B ILE* 3.0 56.4 + - + +
----------------------------------------------------------
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Residues in contact with LYS 578 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574B THR* 2.8 40.6 + - + +
575B ASP* 3.7 9.2 - - - +
577B TYR* 1.3 81.4 - - + +
579B ARG* 1.3 62.5 + - - +
581B ILE* 3.3 9.6 + - + +
582B LEU* 3.0 23.3 + - - +
----------------------------------------------------------
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Residues in contact with ARG 579 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
575B ASP* 2.8 18.3 + - + +
576B LEU* 3.8 11.0 - - + +
578B LYS* 1.3 75.6 - - - +
580B PHE* 1.3 56.4 + - - +
582B LEU* 2.7 45.7 + - - +
583B VAL* 2.8 25.1 + - + +
----------------------------------------------------------
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Residues in contact with PHE 580 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
576B LEU 3.5 10.5 + - - +
577B TYR* 3.2 18.0 + + + +
579B ARG* 1.3 77.9 - - - +
581B ILE* 1.3 67.6 + - + +
583B VAL* 3.1 20.1 + - + +
584B LEU* 2.9 53.7 + - + +
----------------------------------------------------------
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Residues in contact with ILE 581 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577B TYR* 3.0 58.3 + - + +
578B LYS* 3.6 11.9 - - + +
580B PHE* 1.3 79.5 - - + +
582B LEU* 1.3 64.8 + - - +
584B LEU* 3.3 13.7 + - + +
585B ASN* 3.0 23.4 + - + +
----------------------------------------------------------
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Residues in contact with LEU 582 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578B LYS 3.0 11.5 + - - +
579B ARG* 2.7 36.4 + - - +
581B ILE* 1.3 79.3 - - - +
583B VAL* 1.3 54.7 + - + +
585B ASN* 3.1 15.8 + - + +
586B GLU* 2.8 44.6 + - + +
----------------------------------------------------------
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Residues in contact with VAL 583 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
579B ARG* 2.8 29.8 + - - +
580B PHE* 3.1 21.5 + - + +
582B LEU* 1.3 77.1 - - - +
584B LEU* 1.3 63.7 + - + +
586B GLU* 3.3 6.5 + - - +
587B LYS* 3.1 39.6 + - + +
----------------------------------------------------------
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Residues in contact with LEU 584 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
580B PHE* 2.9 44.0 + - + +
581B ILE* 3.5 16.4 - - + +
582B LEU 3.3 0.2 - - - -
583B VAL* 1.3 78.3 - - + +
585B ASN* 1.3 64.2 + - - +
587B LYS* 3.5 8.7 + - + +
588B LYS* 3.5 15.6 + - - +
----------------------------------------------------------
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Residues in contact with ASN 585 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
581B ILE* 3.0 15.2 + - + +
582B LEU* 3.4 18.2 - - + +
584B LEU* 1.3 75.3 - - - +
586B GLU* 1.3 58.1 + - - +
588B LYS* 2.6 60.0 + - - +
589B THR* 2.8 17.5 + - - -
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Residues in contact with GLU 586 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
582B LEU* 2.8 33.1 + - + +
583B VAL* 3.8 6.3 - - - +
585B ASN* 1.3 73.2 - - - +
587B LYS* 1.3 59.0 + - + +
589B THR* 4.2 20.0 + - - +
590B LYS* 3.0 58.6 + - - +
----------------------------------------------------------
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Residues in contact with LYS 587 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583B VAL* 3.1 32.6 + - + +
584B LEU* 3.7 10.1 - - + +
585B ASN 3.1 0.2 - - - -
586B GLU* 1.3 76.4 - - + +
588B LYS* 1.3 58.2 + - - +
590B LYS* 4.4 22.5 - - + +
591B ILE* 2.8 25.9 + - - +
----------------------------------------------------------
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Residues in contact with LYS 588 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
584B LEU 3.5 5.8 + - - +
585B ASN* 2.6 50.3 + - - +
587B LYS* 1.3 74.1 - - - +
589B THR* 1.3 63.1 + - - +
590B LYS 3.3 1.1 - - - -
591B ILE* 3.4 9.8 - - - +
592B ARG* 3.3 29.5 + - + +
----------------------------------------------------------
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Residues in contact with THR 589 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585B ASN* 2.8 32.7 + - - -
586B GLU* 3.1 23.7 + - - +
588B LYS* 1.3 77.8 - - - +
590B LYS* 1.3 60.7 + - + +
592B ARG* 3.5 5.3 + - - +
593B SER* 3.1 29.3 + - - -
----------------------------------------------------------
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Residues in contact with LYS 590 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586B GLU* 3.0 40.7 + - - +
587B LYS* 4.8 22.7 - - + +
589B THR* 1.3 74.0 - - - +
591B ILE* 1.3 62.1 + - + +
593B SER* 3.3 6.4 + - - -
594B LEU* 2.9 43.6 + - + +
----------------------------------------------------------
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Residues in contact with ILE 591 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
587B LYS 2.8 28.0 - - - +
588B LYS* 3.4 11.2 - - - +
589B THR 3.3 0.2 - - - -
590B LYS* 1.3 78.7 - - + +
592B ARG* 1.3 61.5 + - + +
594B LEU* 4.7 5.2 - - + -
595B HIS* 2.7 49.3 + - + +
----------------------------------------------------------
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Residues in contact with ARG 592 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
588B LYS* 3.3 22.6 + - + +
589B THR* 3.9 6.3 - - + +
590B LYS 3.2 0.2 - - - -
591B ILE* 1.3 80.7 - - + +
593B SER* 1.3 65.9 + - - +
594B LEU 3.0 2.0 + - - -
595B HIS* 3.8 24.1 + - - -
596B ASN* 2.8 46.7 + - - +
----------------------------------------------------------
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Residues in contact with SER 593 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
589B THR* 3.1 20.4 + - - -
590B LYS* 3.7 8.1 - - - -
592B ARG* 1.3 76.2 - - - +
594B LEU* 1.3 63.8 + - - +
597B LYS* 3.1 35.7 - - - +
----------------------------------------------------------
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Residues in contact with LEU 594 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590B LYS* 2.9 26.5 + - + +
591B ILE* 3.8 5.2 - - + +
592B ARG 3.0 0.4 - - - -
593B SER* 1.3 77.4 - - - +
595B HIS* 1.3 52.6 + - - +
596B ASN 2.4 15.1 + - - -
597B LYS* 2.5 4.4 + - + -
598B LEU* 2.3 60.6 + - + +
----------------------------------------------------------
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Residues in contact with HIS 595 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
591B ILE* 2.7 31.6 + - + +
592B ARG* 3.8 26.8 + - - +
594B LEU* 1.3 71.1 - - - +
596B ASN* 1.3 62.4 + - - +
598B LEU* 3.5 13.4 - - - +
599B LEU* 2.8 65.3 + - + +
----------------------------------------------------------
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Residues in contact with ASN 596 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592B ARG* 2.8 54.8 + - - +
593B SER 4.8 0.4 - - - +
594B LEU 2.4 13.4 + - - -
595B HIS* 1.3 75.8 - - - +
597B LYS* 1.3 69.5 + - + +
598B LEU 3.2 3.0 + - - -
599B LEU* 3.8 7.7 + - - +
600B ASN* 3.7 13.9 + - - +
----------------------------------------------------------
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Residues in contact with LYS 597 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
593B SER* 3.1 24.2 + - - +
594B LEU* 2.5 9.3 + - + -
596B ASN* 1.3 79.9 - - + +
598B LEU* 1.3 56.3 + - - -
600B ASN* 3.1 24.8 - - + +
601B ALA* 2.8 24.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 598 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594B LEU* 2.3 65.4 + - + +
595B HIS* 3.5 9.4 - - - +
597B LYS* 1.3 66.4 - - - +
599B LEU* 1.3 54.3 + - + +
600B ASN 2.8 5.2 - - - -
601B ALA* 3.4 9.4 - - + +
602B ALA* 2.6 45.7 + - + +
----------------------------------------------------------
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Residues in contact with LEU 599 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595B HIS* 2.8 51.7 + - + +
596B ASN* 3.8 8.9 + - - +
598B LEU* 1.3 80.6 - - + +
600B ASN* 1.3 50.5 + - - +
602B ALA* 4.7 3.8 - - + -
603B GLN* 2.4 48.7 + - + +
----------------------------------------------------------
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Residues in contact with ASN 600 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
596B ASN 3.7 5.4 + - - +
597B LYS* 3.1 36.6 - - + +
599B LEU* 1.3 81.7 - - - +
601B ALA* 1.3 59.4 + - - +
602B ALA 3.4 0.4 - - - -
603B GLN* 3.7 13.2 + - - +
----------------------------------------------------------
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Residues in contact with ALA 601 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597B LYS 2.8 17.0 + - - +
598B LEU* 3.1 13.7 + - + +
600B ASN* 1.3 79.7 - - - +
602B ALA* 1.3 61.5 + - - +
----------------------------------------------------------
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Residues in contact with ALA 602 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598B LEU* 2.6 32.0 + - + +
599B LEU* 4.7 4.9 - - + -
601B ALA* 1.3 77.2 - - - +
603B GLN* 1.3 61.9 + - + +
----------------------------------------------------------
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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