Contacts of the helix formed by residues 591 - 615 (chain A) in PDB entry 3T6A
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 GLY 591 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585A LEU* 3.3 36.3 + - - -
586A ILE* 4.5 0.3 - - - +
588A LEU 2.9 7.5 + - - -
589A PRO 2.9 1.8 + - - -
590A HIS* 1.3 77.3 - - - +
592A HIS* 1.3 57.7 + - - +
593A GLN 3.3 2.7 - - - -
594A LEU* 3.2 7.2 + - - +
595A ARG* 2.9 39.0 + - - +
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Residues in contact with HIS 592 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
511A THR* 3.5 31.5 + - - -
589A PRO 3.2 14.3 + - - +
590A HIS* 3.2 2.5 - - - -
591A GLY* 1.3 77.9 - - - +
593A GLN* 1.3 63.7 + - - +
595A ARG* 3.3 12.5 + - - +
596A LEU* 3.0 47.7 + - + +
718A GLU* 2.8 39.6 + - - -
732B LYS* 6.1 2.0 - - - -
735B GLN* 3.5 13.4 + - - +
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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
----------------------------------------------------------
511A THR* 4.2 15.4 - - - +
512A VAL* 2.4 29.7 + - - +
513A SER 3.7 1.0 - - - +
514A SER* 3.3 29.5 + - - -
565A ARG* 5.4 6.7 - - - +
590A HIS 4.8 4.1 + - - +
591A GLY 3.3 0.6 - - - -
592A HIS* 1.3 79.6 - - + +
594A LEU* 1.3 59.6 + - - +
596A LEU* 3.0 10.6 + - - +
597A ASP* 2.8 38.7 + - - +
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Residues in contact with LEU 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563A VAL* 3.5 24.9 - - + +
564A ALA* 4.4 4.3 - - - +
565A ARG* 4.0 25.7 - - - +
582A GLY* 3.6 27.6 - - - +
585A LEU* 3.9 16.4 - - + -
586A ILE* 3.6 21.3 - - + -
591A GLY* 3.2 13.5 + - - +
593A GLN* 1.3 76.5 - - - +
595A ARG* 1.3 54.7 + - - +
597A ASP* 2.9 15.6 + - + +
598A ILE* 2.7 49.6 + - + +
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Residues in contact with ARG 595 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
586A ILE* 2.6 46.8 + - + +
588A LEU 2.8 19.4 + - - -
589A PRO 3.2 18.6 + - - -
591A GLY 2.9 12.3 + - - +
592A HIS* 3.3 19.1 - - - +
594A LEU* 1.3 76.7 - - - +
596A LEU* 1.3 61.1 + - - +
598A ILE* 3.3 5.2 + - - +
599A ILE* 3.0 28.5 + - - +
714A VAL* 3.5 29.9 - - + +
717A MET* 3.6 34.1 - - - +
718A GLU* 2.6 25.5 + - + +
735B GLN* 2.9 31.5 + - - +
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Residues in contact with LEU 596 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
511A THR 3.6 17.7 - - - +
512A VAL* 3.5 29.2 - - - +
513A SER* 4.1 6.0 + - - +
592A HIS* 3.0 53.2 + - + +
593A GLN* 3.0 10.3 + - - +
595A ARG* 1.3 72.8 - - - +
597A ASP* 1.3 67.3 + - - +
599A ILE* 3.3 12.0 + - + +
600A GLU* 3.0 22.5 + - - +
718A GLU* 4.2 13.7 - - + +
720A GLN 6.3 0.9 - - - -
721A ALA* 5.7 5.8 - - - -
797A GLN* 5.1 3.1 + - - +
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Residues in contact with ASP 597 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513A SER* 3.3 8.1 - - - -
514A SER* 2.7 50.5 + - - -
515A PHE* 3.5 28.6 + - + -
563A VAL* 5.0 5.6 - - + -
565A ARG* 4.8 7.3 + - - -
593A GLN* 2.8 23.7 + - - +
594A LEU* 3.3 16.9 - - + +
596A LEU* 1.3 75.9 - - - +
598A ILE* 1.3 63.1 + - - +
600A GLU* 3.1 2.2 + - - +
601A ARG* 3.1 22.2 + - - +
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Residues in contact with ILE 598 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563A VAL* 5.0 9.6 - - + -
564A ALA* 5.0 9.0 - - + -
583A LEU* 6.4 0.2 - - + -
586A ILE* 3.8 31.0 - - + -
594A LEU* 2.7 34.0 + - + +
595A ARG* 3.6 6.7 - - - +
596A LEU 3.3 0.2 - - - -
597A ASP* 1.3 73.3 - - - +
599A ILE* 1.3 61.8 + - - +
601A ARG* 5.0 0.7 - - - -
602A HIS* 3.4 8.0 + - - +
645A TYR* 2.6 46.5 + - + +
710A LEU* 4.3 26.2 - - + -
711A MET* 4.3 8.7 - - - -
714A VAL* 4.2 18.8 - - + -
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Residues in contact with ILE 599 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595A ARG 3.0 12.9 + - - +
596A LEU* 3.6 13.7 - - + +
597A ASP 3.2 0.2 - - - -
598A ILE* 1.3 77.0 - - - +
600A GLU* 1.3 61.7 + - - +
602A HIS* 3.4 2.1 + - - +
603A ASN* 3.2 28.9 + - - +
711A MET* 3.6 20.5 - - + +
714A VAL* 3.3 38.4 - - + +
715A THR* 4.7 3.8 - - - +
718A GLU* 4.2 8.3 - - + -
721A ALA* 3.6 26.5 - - + -
722A VAL 3.4 25.8 - - - +
723A THR* 4.8 2.7 - - + -
797A GLN* 4.4 8.1 - - - +
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Residues in contact with GLU 600 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513A SER* 3.7 19.8 + - - +
515A PHE* 4.1 15.7 - - + -
596A LEU 3.0 16.2 + - - +
597A ASP 3.1 4.2 + - - +
599A ILE* 1.3 74.7 - - - +
601A ARG* 1.3 61.9 + - - +
603A ASN* 3.5 0.3 + - - +
604A THR* 2.9 53.8 + - - +
780A THR* 4.5 0.7 - - + -
784A MET* 3.7 21.0 - - + +
797A GLN* 3.3 16.1 + - - +
800A ARG* 2.9 32.9 + - - -
801A TYR* 2.7 23.6 + - - -
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Residues in contact with ARG 601 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
515A PHE* 4.3 3.6 - - + -
556A VAL* 4.1 7.7 + - - +
559A MET* 3.3 35.1 - - - +
560A ASP* 2.8 31.6 + - - +
563A VAL* 4.0 25.2 - - + +
597A ASP 3.1 14.5 + - - +
598A ILE* 5.0 0.2 - - - -
600A GLU* 1.3 76.7 - - - +
602A HIS* 1.3 57.1 + - - +
604A THR* 3.9 1.0 - - - +
605A MET* 2.9 55.8 + - + +
645A TYR* 3.4 18.8 - - - +
778A CYS* 2.7 27.1 + - - +
780A THR* 3.1 44.0 + - + +
783A GLN* 4.6 1.7 - - - +
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Residues in contact with HIS 602 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598A ILE 3.4 15.2 + - - +
599A ILE 3.7 4.3 - - - +
601A ARG* 1.3 78.7 - - - +
603A ASN* 1.3 60.5 + - - +
605A MET* 3.3 6.4 + - - +
606A ALA* 2.9 28.1 + - - +
645A TYR* 3.3 41.6 + + + +
648A SER* 2.9 26.4 + - - -
649A ALA* 3.4 25.9 + - + +
652A LYS* 4.5 18.0 + - + +
711A MET* 3.8 33.3 - - + +
727A THR* 6.1 0.2 - - - -
728A ASP* 5.5 3.4 - - - -
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Residues in contact with ASN 603 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599A ILE* 3.2 22.7 + - - +
600A GLU 3.9 0.2 - - - +
602A HIS* 1.3 81.4 + - - +
604A THR* 1.3 58.0 + - - +
606A ALA* 3.4 4.8 + - - +
607A ILE* 2.9 36.0 + - - +
652A LYS* 3.6 9.8 + - - +
711A MET* 4.7 4.5 - - - +
722A VAL 3.2 25.5 + - - -
723A THR* 3.5 8.2 - - - +
724A PHE* 3.0 28.0 + - + +
801A TYR* 3.3 33.9 + - + +
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Residues in contact with THR 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 GLU* 2.9 37.5 + - - +
601A ARG 3.9 2.5 - - - -
603A ASN* 1.3 75.8 - - - +
605A MET* 1.3 57.7 + - - +
607A ILE* 3.4 10.2 + - - +
608A GLY* 3.0 24.8 + - - -
780A THR* 4.2 7.4 - - + -
783A GLN* 3.7 32.6 - - + +
784A MET* 4.0 19.2 - - + +
787A LEU* 3.9 12.8 - - + +
788A TRP* 3.9 12.0 - - + -
801A TYR* 4.6 0.2 + - - -
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Residues in contact with MET 605 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556A VAL* 4.7 8.5 - - + -
601A ARG* 2.9 60.5 + - + +
602A HIS* 3.6 4.3 - - - +
604A THR* 1.3 73.4 - - - +
606A ALA* 1.3 66.7 + - - +
608A GLY* 3.1 2.9 + - - -
609A ILE* 3.1 37.8 + - + +
645A TYR* 5.3 2.2 - - + -
646A SER* 3.3 32.5 - - - +
649A ALA* 4.1 15.0 - - + -
650A LEU* 4.6 7.9 - - + -
783A GLN* 3.8 21.3 + - - +
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Residues in contact with ALA 606 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602A HIS 2.9 20.3 + - - +
603A ASN* 3.9 4.0 - - - +
605A MET* 1.3 72.9 - - - +
607A ILE* 1.3 63.2 + - + +
609A ILE* 3.4 5.4 + - - +
610A ALA 3.2 17.2 + - - -
649A ALA* 3.6 28.6 - - + +
652A LYS* 4.0 20.2 - - + -
653A ALA* 3.6 1.3 - - - +
656A MET* 3.5 23.8 - - + +
724A PHE* 5.8 0.2 - - + -
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Residues in contact with ILE 607 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603A ASN 2.9 28.7 + - - +
604A THR 3.6 4.3 - - - +
605A MET 3.2 0.2 - - - -
606A ALA* 1.3 77.5 - - - +
608A GLY* 1.3 57.6 - - - +
610A ALA* 3.3 4.8 + - - +
611A VAL* 3.0 26.7 + - + +
656A MET* 4.4 5.2 - - - -
724A PHE* 3.6 39.9 - - + -
787A LEU* 3.9 15.5 - - + -
788A TRP* 4.0 17.7 - - + -
801A TYR* 3.9 24.2 - - + -
804A PHE* 3.9 31.6 - - + -
808A LEU* 4.8 4.5 - - + -
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Residues in contact with GLY 608 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604A THR 3.0 15.1 + - - -
605A MET* 3.1 4.2 + - - -
607A ILE* 1.3 71.6 - - - +
609A ILE* 1.3 67.0 + - - +
611A VAL* 3.1 9.0 + - - +
612A ASP* 2.9 23.5 + - - +
783A GLN* 6.1 0.4 - - - -
787A LEU* 4.3 11.9 - - - +
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Residues in contact with ILE 609 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
544A PHE* 6.1 4.5 - - + -
605A MET* 3.1 22.3 + - + +
606A ALA* 3.6 2.9 - - - +
607A ILE 3.3 0.2 - - - -
608A GLY* 1.3 75.9 - - - +
610A ALA* 1.3 53.7 + - - +
612A ASP* 2.8 32.7 + - + +
613A ILE* 3.1 11.3 + - + +
630A ILE* 3.8 38.1 - - + -
650A LEU* 4.2 31.0 - - + -
653A ALA* 3.5 26.5 - - + -
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Residues in contact with ALA 610 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606A ALA 3.2 5.0 + - - +
607A ILE 3.5 8.3 - - - +
609A ILE* 1.3 79.1 - - - +
611A VAL* 1.3 56.8 + - - +
612A ASP 3.2 0.2 + - - -
613A ILE* 3.2 5.2 + - - +
614A LEU* 2.9 32.5 + - + +
653A ALA* 4.0 4.2 - - + +
656A MET* 3.7 31.2 - - + -
659A ILE* 4.5 16.4 - - + -
808A LEU* 4.0 16.8 - - + -
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Residues in contact with VAL 611 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
532A LEU* 4.6 12.1 - - + -
537A LEU* 4.8 11.7 - - + -
607A ILE* 3.0 17.3 + - + +
608A GLY* 3.1 10.5 + - - +
610A ALA* 1.3 76.0 - - - +
612A ASP* 1.3 58.3 + - - +
614A LEU* 4.5 0.9 - - - +
615A GLY* 2.9 27.0 + - - +
616A CYS* 3.3 16.2 + - - -
787A LEU* 4.1 13.7 - - + -
804A PHE* 3.6 31.4 - - + -
807A ILE* 5.8 0.9 - - + -
808A LEU* 3.8 18.8 - - + -
811A LEU* 5.9 4.3 - - + -
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Residues in contact with ASP 612 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
541A LYS* 2.7 39.3 - - - +
544A PHE* 3.6 33.1 - - - -
608A GLY 2.9 11.3 + - - +
609A ILE* 2.8 18.8 + - + +
611A VAL* 1.3 79.8 - - - +
613A ILE* 1.3 60.5 + - + +
616A CYS* 3.5 23.3 + - - +
617A THR* 3.8 9.4 - - - +
626A THR* 3.9 6.8 - - - +
630A ILE* 4.3 4.6 - - + +
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Residues in contact with ILE 613 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609A ILE* 3.1 11.5 + - + +
610A ALA* 3.2 4.9 + - - +
612A ASP* 1.3 78.6 - - - +
614A LEU* 1.3 56.8 + - - +
615A GLY 3.4 0.2 - - - -
617A THR* 2.6 26.3 + - - -
623A ARG* 3.4 26.8 - - + +
626A THR* 4.0 9.2 - - + -
627A LEU* 3.5 28.7 - - + -
630A ILE* 3.3 33.7 - - + -
653A ALA* 5.6 0.9 - - + +
654A LEU* 4.1 10.8 - - + -
659A ILE* 4.0 28.0 - - + -
662A LEU* 4.4 10.5 - - + -
665A THR* 5.5 1.6 - - + -
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Residues in contact with LEU 614 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610A ALA* 2.9 11.8 + - + +
613A ILE* 1.3 77.3 - - - +
615A GLY* 1.3 58.5 + - - +
617A THR* 4.4 2.0 - - - +
658A GLN* 4.0 16.4 - - + +
659A ILE* 3.7 27.6 - - + -
662A LEU* 4.3 10.8 - - + -
808A LEU* 3.7 38.4 - - + +
811A LEU* 3.5 24.0 - - + +
812A SER* 3.4 35.0 - - - +
814A LYS* 5.4 0.7 + - - -
815A LEU* 3.4 34.9 - - + +
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Residues in contact with GLY 615 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
537A LEU* 5.9 5.3 - - - +
611A VAL* 2.9 15.3 + - - -
613A ILE 3.4 0.2 - - - -
614A LEU* 1.3 79.5 - - - +
616A CYS* 1.3 60.6 + - - +
617A THR 3.1 14.8 + - - +
811A LEU* 4.1 13.9 - - - +
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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