Contacts of the helix formed by residues 591 - 615 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585B LEU* 3.3 38.1 + - - +
586B ILE* 4.2 1.3 - - - +
588B LEU 3.0 8.7 + - - -
590B HIS* 1.3 75.0 - - - +
592B HIS* 1.3 63.9 + - - +
593B GLN 3.3 2.5 - - - -
594B LEU* 3.2 5.2 + - - +
595B ARG* 2.8 34.5 + - - +
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Residues in contact with HIS 592 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735A GLN* 3.4 11.2 + - - +
511B THR* 3.4 38.7 + - + -
589B PRO 3.5 9.4 - - - +
590B HIS* 3.0 3.8 - - - -
591B GLY* 1.3 77.0 - - - +
593B GLN* 1.3 63.4 + - + +
595B ARG* 3.0 25.7 + - - +
596B LEU* 3.1 45.3 + - + +
718B GLU* 3.0 33.3 + - - -
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Residues in contact with GLN 593 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
511B THR* 3.0 19.5 + - - +
512B VAL 2.3 31.6 + - - +
513B SER 4.1 1.4 - - - +
514B SER* 3.6 25.3 - - - -
516B ARG* 5.4 2.1 + - - -
565B ARG* 5.2 7.4 - - - +
590B HIS 4.5 5.4 + - - +
591B GLY 3.3 0.6 - - - -
592B HIS* 1.3 77.6 - - + +
594B LEU* 1.3 67.3 + - - +
596B LEU* 3.2 7.0 + - - +
597B ASP* 3.0 34.8 + - - +
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Residues in contact with LEU 594 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563B VAL* 3.4 24.9 - - + +
564B ALA 4.1 13.9 - - - +
565B ARG* 4.0 27.5 - - - +
582B GLY* 3.7 18.6 - - - +
585B LEU* 4.5 13.2 - - + -
586B ILE* 3.1 27.8 - - + -
591B GLY 3.2 10.4 + - - +
593B GLN* 1.3 78.1 - - - +
595B ARG* 1.3 58.5 + - - +
597B ASP* 3.0 13.1 + - + +
598B ILE* 2.8 42.6 + - + +
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Residues in contact with ARG 595 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735A GLN* 2.7 30.1 + - - +
586B ILE* 2.7 46.5 + - + +
588B LEU 2.8 19.2 + - - -
589B PRO 3.2 9.1 + - - -
591B GLY 2.8 13.8 + - - +
592B HIS* 3.0 30.5 - - - +
594B LEU* 1.3 75.4 - - - +
596B LEU* 1.3 62.6 + - - +
598B ILE* 3.3 6.7 + - - +
599B ILE* 3.0 27.6 + - - +
714B VAL* 3.6 30.2 - - + +
717B MET* 3.5 29.6 - - - +
718B GLU* 2.6 30.8 + - + +
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Residues in contact with LEU 596 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
511B THR* 3.8 23.6 - - - +
512B VAL* 3.8 20.6 - - - +
513B SER* 4.5 8.8 + - - +
592B HIS* 3.1 37.6 + - + +
593B GLN* 3.2 7.4 + - - +
595B ARG* 1.3 74.4 - - - +
597B ASP* 1.3 63.3 + - - +
599B ILE* 3.0 12.4 + - + +
600B GLU* 2.9 24.8 + - - +
718B GLU* 4.2 26.9 - - + +
721B ALA* 5.7 5.4 - - - +
797B GLN* 5.4 0.9 - - - +
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Residues in contact with ASP 597 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513B SER* 3.2 7.7 - - - -
514B SER* 2.7 49.5 + - - -
515B PHE* 3.5 28.8 - - + -
563B VAL* 5.0 5.8 - - + -
565B ARG* 4.5 8.3 + - - -
593B GLN* 3.0 22.9 + - - +
594B LEU* 3.0 18.5 + - + +
596B LEU* 1.3 74.0 - - - +
598B ILE* 1.3 64.1 + - - +
599B ILE 3.2 0.2 + - - -
600B GLU* 3.2 1.4 + - - -
601B ARG* 3.0 22.6 + - - +
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Residues in contact with ILE 598 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563B VAL* 5.1 6.7 - - + -
564B ALA* 4.7 13.5 - - + -
583B LEU* 6.2 0.2 - - + -
586B ILE* 4.2 27.8 - - + -
594B LEU* 2.8 29.4 + - + +
595B ARG* 3.6 9.6 - - - +
597B ASP* 1.3 78.0 - - - +
599B ILE* 1.3 60.5 + - - +
601B ARG* 4.7 1.1 - - - -
602B HIS* 3.3 8.3 + - - +
645B TYR* 2.6 51.4 + - + +
710B LEU* 4.2 28.0 - - + -
711B MET* 4.6 4.3 - - - -
714B VAL* 4.4 13.7 - - + -
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Residues in contact with ILE 599 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595B ARG 3.0 13.0 + - - +
596B LEU* 3.0 13.4 + - + +
598B ILE* 1.3 74.8 - - - +
600B GLU* 1.3 66.4 + - - +
602B HIS* 3.4 2.3 + - - +
603B ASN* 3.0 38.3 + - - +
711B MET* 4.0 22.4 - - + +
714B VAL* 3.2 41.3 - - + +
715B THR* 4.7 2.7 - - - +
718B GLU* 4.2 9.4 - - + -
721B ALA* 3.8 26.0 - - + -
722B VAL 3.7 13.0 - - - +
723B THR* 4.5 4.5 - - + -
797B GLN* 4.5 5.4 - - - +
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Residues in contact with GLU 600 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513B SER* 3.8 21.8 + - - +
515B PHE* 4.1 17.7 - - + -
596B LEU 2.9 15.6 + - - +
597B ASP 3.7 4.7 - - - +
599B ILE* 1.3 78.9 - - - +
601B ARG* 1.3 51.4 + - - +
603B ASN* 3.2 1.5 + - - +
604B THR* 2.8 59.1 + - - +
780B THR* 4.4 1.1 - - + -
784B MET* 4.0 17.3 - - + +
797B GLN* 3.5 12.9 + - - +
800B ARG* 2.9 34.5 + - - -
801B TYR* 2.8 25.2 + - - -
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Residues in contact with ARG 601 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
515B PHE* 4.5 2.5 - - + -
556B VAL* 4.2 7.9 + - - +
559B MET* 3.6 27.5 - - - +
560B ASP* 2.7 32.2 + - - -
563B VAL* 4.1 26.5 - - - +
597B ASP 3.0 14.5 + - - +
598B ILE* 4.7 0.4 - - - -
600B GLU* 1.3 74.1 - - - +
602B HIS* 1.3 61.0 + - - +
604B THR* 4.0 0.5 - - - -
605B MET* 2.9 48.6 + - + +
645B TYR* 3.3 17.7 - - - +
778B CYS* 2.9 25.1 + - - +
780B THR* 2.9 50.0 + - + +
783B GLN* 4.7 4.7 - - - +
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Residues in contact with HIS 602 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598B ILE 3.3 14.3 + - - +
599B ILE 3.7 1.1 - - - +
601B ARG* 1.3 75.0 - - - +
603B ASN* 1.3 67.6 + - - +
605B MET* 3.7 5.1 - - - +
606B ALA* 3.0 21.8 + - - +
645B TYR* 3.1 38.7 + + - +
648B SER* 2.8 33.2 + - - -
649B ALA* 3.4 25.2 + - + +
652B LYS* 4.5 20.0 + - + +
711B MET* 3.6 37.8 - - + +
728B ASP* 4.9 4.9 - - - -
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Residues in contact with ASN 603 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599B ILE* 3.0 24.7 + - - +
600B GLU 3.5 2.7 - - - +
602B HIS* 1.3 79.9 + - - +
604B THR* 1.3 62.4 + - - +
606B ALA* 3.2 4.7 + - - +
607B ILE* 3.0 28.9 + - - +
652B LYS* 4.0 7.0 + - - +
711B MET* 4.3 4.5 - - - +
722B VAL 3.0 26.5 + - - -
723B THR* 3.5 11.8 - - - +
724B PHE* 3.2 27.6 + - + +
797B GLN* 3.9 0.8 + - - -
801B TYR* 3.0 33.8 + - + +
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Residues in contact with THR 604 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600B GLU* 2.8 41.8 + - - +
601B ARG* 4.0 4.9 - - - -
603B ASN* 1.3 71.7 - - - +
605B MET* 1.3 62.5 + - - +
607B ILE* 3.5 7.5 + - - +
608B GLY* 3.0 19.6 + - - -
780B THR* 4.4 5.4 - - + +
783B GLN* 3.4 40.2 - - + +
784B MET* 3.9 11.0 - - + +
787B LEU* 3.9 12.7 - - + +
788B TRP* 3.7 15.5 - - + -
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Residues in contact with MET 605 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556B VAL* 4.7 7.4 - - - -
601B ARG* 2.9 52.8 + - + +
602B HIS* 3.7 4.0 - - - +
604B THR* 1.3 77.3 - - - +
606B ALA* 1.3 62.3 + - - +
608B GLY* 3.1 2.9 + - - -
609B ILE* 2.9 31.6 + - + +
645B TYR* 4.6 5.6 - - + -
646B SER* 3.2 36.1 - - - +
649B ALA* 3.9 16.8 - - + -
650B LEU* 4.3 14.1 - - + -
783B GLN* 3.6 19.7 + - - +
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Residues in contact with ALA 606 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602B HIS 3.0 17.3 + - - +
603B ASN 3.8 2.9 - - - +
605B MET* 1.3 75.3 - - - +
607B ILE* 1.3 62.2 + - + +
609B ILE* 4.5 1.8 - - - -
610B ALA 3.0 18.2 + - - -
649B ALA* 3.5 27.9 - - - +
652B LYS* 3.9 26.9 - - + +
653B ALA* 3.5 7.3 - - - +
656B MET* 3.4 19.8 - - + +
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Residues in contact with ILE 607 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603B ASN 3.0 18.9 + - - +
604B THR 3.7 3.8 - - - +
606B ALA* 1.3 77.0 - - - +
608B GLY* 1.3 56.4 + - - +
610B ALA* 3.1 9.2 + - - +
611B VAL* 2.8 28.1 + - + +
656B MET* 4.5 0.9 - - - -
724B PHE* 3.3 50.9 - - + -
787B LEU* 3.6 21.1 - - + -
788B TRP* 3.9 14.6 - - + -
801B TYR* 3.8 22.2 - - + -
804B PHE* 4.0 28.3 - - + -
808B LEU* 5.3 1.8 - - + -
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Residues in contact with GLY 608 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604B THR 3.0 14.9 + - - -
605B MET* 3.1 3.3 + - - -
607B ILE* 1.3 72.2 - - - +
609B ILE* 1.3 61.4 + - - +
611B VAL* 3.2 9.6 + - - +
612B ASP* 2.8 29.7 + - - +
783B GLN* 5.9 2.5 - - - -
787B LEU* 4.4 12.1 - - - -
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Residues in contact with ILE 609 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
544B PHE* 6.3 3.6 - - + -
605B MET* 2.9 25.3 + - + +
606B ALA* 3.7 3.4 - - - +
608B GLY* 1.3 73.8 - - - +
610B ALA* 1.3 62.3 + - - +
612B ASP* 3.0 24.0 + - + +
613B ILE* 3.3 11.1 + - + +
630B ILE* 3.9 38.4 - - + -
650B LEU* 3.8 37.7 - - + +
653B ALA* 3.6 22.2 - - + -
654B LEU* 5.1 0.7 - - + -
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Residues in contact with ALA 610 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606B ALA 3.0 15.3 + - - +
607B ILE 3.1 8.9 + - - +
609B ILE* 1.3 74.9 - - - +
611B VAL* 1.3 62.1 + - - +
613B ILE* 3.1 14.5 + - - +
614B LEU* 3.1 18.9 + - - +
653B ALA* 4.0 5.5 - - + +
656B MET* 3.6 27.4 - - + -
659B ILE* 4.7 13.5 - - + -
808B LEU* 3.7 17.7 - - + -
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Residues in contact with VAL 611 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
532B LEU* 4.5 17.3 - - + -
537B LEU* 4.8 15.0 - - + -
607B ILE 2.8 18.8 + - - +
608B GLY* 3.6 10.3 - - - +
610B ALA* 1.3 71.3 - - - +
612B ASP* 1.3 62.2 + - - +
615B GLY* 2.9 35.1 + - - +
616B CYS* 3.3 5.3 + - + +
787B LEU* 3.9 9.4 - - + -
804B PHE* 3.5 32.1 - - + -
807B ILE* 5.7 1.3 - - + -
808B LEU* 3.9 17.7 - - + -
811B LEU* 5.8 2.9 - - + -
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Residues in contact with ASP 612 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
541B LYS* 3.2 32.5 + - - +
544B PHE* 4.4 21.9 - - + +
608B GLY 2.8 13.6 + - - +
609B ILE* 3.0 18.5 + - + +
611B VAL* 1.3 78.4 - - - +
613B ILE* 1.3 59.2 + - + +
616B CYS* 3.9 13.4 + - - +
617B THR* 3.9 12.5 - - - +
626B THR* 4.0 17.4 - - + +
630B ILE* 4.6 8.5 - - + +
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Residues in contact with ILE 613 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609B ILE* 3.7 9.0 - - + +
610B ALA* 3.1 8.1 + - - +
611B VAL 3.0 0.2 - - - -
612B ASP* 1.3 78.7 - - - +
614B LEU* 1.3 59.9 + - - +
615B GLY 3.4 0.2 - - - -
617B THR* 3.0 21.6 + - - +
623B ARG* 3.4 29.1 - - + +
626B THR* 3.9 10.8 - - + -
627B LEU* 3.7 25.6 - - + +
630B ILE* 3.2 35.7 - - + -
653B ALA* 6.2 0.4 - - + -
654B LEU* 3.9 10.1 - - + -
659B ILE* 3.9 26.9 - - + -
662B LEU* 4.4 10.5 - - + -
665B THR* 5.5 2.7 - - + -
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Residues in contact with LEU 614 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610B ALA* 3.1 12.9 + - + +
613B ILE* 1.3 76.4 - - - +
615B GLY* 1.3 61.5 + - - +
617B THR* 4.4 1.5 + - - -
658B GLN* 3.8 12.6 - - + +
659B ILE* 3.2 27.8 - - + -
662B LEU* 3.4 30.1 - - + -
808B LEU* 4.0 27.8 - - + +
811B LEU* 3.7 28.8 - - + +
812B SER* 3.6 28.3 - - - -
815B LEU* 3.6 26.3 - - + +
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Residues in contact with GLY 615 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
537B LEU* 6.4 1.8 - - - -
611B VAL* 2.9 18.4 + - - -
614B LEU* 1.3 82.1 - - - +
616B CYS* 1.3 55.0 + - - +
617B THR* 2.9 18.2 + - - +
811B LEU* 4.1 14.3 - - - +
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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