Contacts of the helix formed by residues 591 - 615 (chain D) 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 D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
585D LEU* 3.3 36.3 + - - -
586D ILE* 4.2 1.3 - - - -
588D LEU 3.1 7.0 + - - -
589D PRO 3.0 2.6 + - - -
590D HIS* 1.3 75.6 - - - +
592D HIS* 1.3 57.3 + - - +
593D GLN 3.3 1.6 - - - -
594D LEU* 3.2 6.5 + - - +
595D ARG* 2.8 42.4 + - - +
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Residues in contact with HIS 592 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735C GLN* 3.5 14.4 + - - +
511D THR* 3.8 22.7 + - - -
589D PRO 3.0 15.4 + - - +
590D HIS* 3.0 3.1 - - - -
591D GLY* 1.3 79.3 - - - +
593D GLN* 1.3 63.9 + - - +
595D ARG* 3.3 12.9 + - - +
596D LEU* 3.1 52.8 + - + +
718D GLU* 2.6 40.6 + - - -
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Residues in contact with GLN 593 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
511D THR* 3.8 19.0 + - - +
512D VAL 3.0 28.2 + - - +
513D SER* 3.9 1.1 - - - +
514D SER* 3.6 15.5 + - - +
516D ARG* 5.8 1.4 + - - -
565D ARG* 6.1 3.1 - - - +
590D HIS 4.5 4.8 + - - +
591D GLY 3.3 0.4 - - - -
592D HIS* 1.3 76.9 - - - +
594D LEU* 1.3 67.3 + - - +
596D LEU* 3.1 9.4 + - - +
597D ASP* 2.9 37.7 + - - +
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Residues in contact with LEU 594 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563D VAL 3.5 22.2 - - - +
564D ALA* 4.3 7.6 - - - +
565D ARG* 4.3 24.8 - - - +
582D GLY* 3.8 24.7 - - - +
585D LEU* 4.7 10.8 - - + -
586D ILE* 3.3 27.1 - - + -
590D HIS 5.3 0.2 + - - -
591D GLY* 3.2 13.9 + - - +
593D GLN* 1.3 78.9 - - - +
595D ARG* 1.3 63.7 + - - +
597D ASP* 3.2 16.8 + - + +
598D ILE* 2.9 35.6 + - + +
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Residues in contact with ARG 595 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735C GLN* 3.1 30.7 + - - +
586D ILE* 2.5 47.0 + - + +
588D LEU 2.7 18.8 + - - -
589D PRO 3.2 20.6 + - - -
591D GLY 2.8 23.0 + - - +
592D HIS* 3.3 10.4 - - - +
593D GLN 3.2 0.2 - - - -
594D LEU* 1.3 74.2 - - - +
596D LEU* 1.3 55.7 + - - +
598D ILE* 3.3 5.7 + - - +
599D ILE* 3.1 33.3 + - - +
714D VAL* 3.6 27.6 - - + +
717D MET* 3.5 31.9 - - - +
718D GLU* 2.7 29.9 + - + +
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Residues in contact with LEU 596 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
511D THR* 3.7 34.1 - - - +
512D VAL 4.1 11.4 - - - +
513D SER* 4.5 2.4 - - - +
592D HIS* 3.1 39.0 + - + +
593D GLN* 3.1 12.8 + - - +
595D ARG* 1.3 72.5 - - - +
597D ASP* 1.3 61.2 - - - +
599D ILE* 3.3 11.5 + - + +
600D GLU* 2.9 29.9 + - - +
718D GLU* 3.9 28.5 - - + +
720D GLN 6.1 0.7 - - - -
721D ALA* 5.4 7.2 - - - +
797D GLN* 5.2 1.6 + - - -
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Residues in contact with ASP 597 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
513D SER* 3.2 2.1 - - - -
514D SER* 2.5 52.3 + - - -
515D PHE* 3.4 28.9 - - + -
563D VAL* 4.9 5.6 - - + -
565D ARG* 5.7 2.4 + - - -
593D GLN* 2.9 25.3 + - - +
594D LEU* 3.6 18.1 - - + +
596D LEU* 1.3 75.9 - - - +
598D ILE* 1.3 57.5 + - - +
600D GLU* 3.4 2.2 + - - -
601D ARG* 3.0 27.0 + - - +
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Residues in contact with ILE 598 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563D VAL* 4.7 11.0 - - + -
564D ALA* 4.8 10.8 - - + -
583D LEU* 6.1 0.7 - - + -
586D ILE* 4.2 23.1 - - + -
594D LEU* 2.9 33.2 + - + +
595D ARG* 3.6 7.6 - - - +
597D ASP* 1.3 78.0 - - - +
599D ILE* 1.3 62.4 + - - +
601D ARG* 4.7 0.9 - - - -
602D HIS* 3.2 8.7 + - - +
645D TYR* 2.6 46.2 + - + +
710D LEU* 3.9 27.6 - - + -
711D MET* 4.4 7.6 - - - -
714D VAL* 4.4 16.8 - - + -
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Residues in contact with ILE 599 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
595D ARG 3.1 11.0 + - - +
596D LEU* 3.6 12.3 - - + +
598D ILE* 1.3 76.5 - - - +
600D GLU* 1.3 67.1 + - - +
602D HIS* 3.3 2.8 + - - +
603D ASN* 3.0 39.6 + - - +
711D MET* 3.8 21.5 - - + -
714D VAL* 3.0 43.3 - - + +
715D THR* 4.3 4.0 - - + -
718D GLU* 4.3 6.1 - - + -
721D ALA* 3.7 26.7 - - + -
722D VAL 3.8 12.8 - - - +
723D THR* 4.4 4.7 - - + -
797D GLN* 5.1 3.6 - - - +
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Residues in contact with GLU 600 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
512D VAL* 5.2 0.7 - - - +
513D SER* 3.3 31.5 + - - +
515D PHE* 3.9 11.2 - - + -
596D LEU 2.9 16.6 + - - +
597D ASP 3.8 4.7 - - - +
599D ILE* 1.3 78.5 - - - +
601D ARG* 1.3 60.9 + - - +
603D ASN* 3.6 0.9 + - - +
604D THR* 3.1 46.7 + - - +
780D THR* 4.6 0.4 - - + -
784D MET* 4.2 13.0 - - - +
797D GLN* 2.8 28.4 + - - +
800D ARG* 3.0 26.4 + - - -
801D TYR* 2.8 21.2 + - - -
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Residues in contact with ARG 601 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
515D PHE* 4.3 3.4 - - + -
556D VAL* 4.4 5.1 + - - +
559D MET* 3.4 24.6 - - - +
560D ASP* 2.8 30.2 + - - +
563D VAL* 4.1 26.8 - - + +
597D ASP 3.0 16.3 + - - +
598D ILE* 4.7 0.2 - - - -
600D GLU* 1.3 75.2 - - - +
602D HIS* 1.3 59.7 + - - +
604D THR* 3.9 0.7 - - - -
605D MET* 2.9 50.0 + - + +
645D TYR* 3.3 20.2 - - - +
778D CYS* 3.0 30.9 + - - +
780D THR* 2.9 42.3 + - - +
783D GLN* 4.6 5.1 + - - +
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Residues in contact with HIS 602 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
598D ILE 3.2 16.4 + - - +
599D ILE 3.6 4.3 - - - +
601D ARG* 1.3 80.7 - - - +
603D ASN* 1.3 65.2 + - - +
605D MET* 3.3 5.3 + - - +
606D ALA* 3.0 20.8 + - - +
645D TYR* 3.2 37.8 + + - +
648D SER* 3.0 24.9 + - - -
649D ALA* 3.4 27.7 + - + +
652D LYS* 4.3 21.8 - - + +
711D MET* 3.7 33.9 - - + +
728D ASP* 5.0 4.9 + - - -
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Residues in contact with ASN 603 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
599D ILE* 3.0 29.5 + - - +
600D GLU 3.8 0.7 - - - +
602D HIS* 1.3 78.7 + - - +
604D THR* 1.3 57.6 + - - +
606D ALA* 3.3 5.2 + - - +
607D ILE* 2.9 34.7 + - - +
652D LYS* 3.8 8.9 + - - +
711D MET* 4.7 2.9 - - - +
722D VAL 3.1 23.4 + - - -
723D THR* 3.5 13.4 - - - +
724D PHE* 3.3 25.0 + - + +
797D GLN* 4.6 0.4 - - - +
801D TYR* 3.0 34.3 + - + +
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Residues in contact with THR 604 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600D GLU* 3.1 31.9 + - - +
601D ARG 3.9 2.9 - - - -
603D ASN* 1.3 77.6 - - - +
605D MET* 1.3 57.5 + - - +
607D ILE* 3.2 7.4 + - - +
608D GLY* 2.9 26.2 + - - -
780D THR* 4.4 7.2 - - + +
783D GLN* 3.5 33.4 - - + +
784D MET* 3.9 18.4 - - + +
787D LEU* 3.9 14.2 - - + +
788D TRP* 3.8 14.9 - - + -
801D TYR* 4.8 0.5 + - - -
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Residues in contact with MET 605 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
556D VAL* 4.7 9.6 - - + -
560D ASP* 4.2 0.2 - - - +
601D ARG* 2.9 53.6 + - + +
602D HIS* 3.7 4.0 - - - +
604D THR* 1.3 78.8 - - - +
606D ALA* 1.3 60.2 + - - +
608D GLY* 3.3 2.3 + - - -
609D ILE* 2.9 36.9 + - + +
645D TYR* 5.0 3.4 - - + -
646D SER* 3.1 32.1 - - - +
649D ALA* 3.9 19.3 - - + -
650D LEU* 4.3 8.7 - - - -
783D GLN* 3.7 18.6 - - - +
838D UNX 4.4 13.5 - - - -
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Residues in contact with ALA 606 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
602D HIS 3.0 16.5 + - - +
603D ASN 3.8 3.8 - - - +
605D MET* 1.3 76.4 - - - +
607D ILE* 1.3 62.6 + - - +
609D ILE* 3.6 2.8 + - - -
610D ALA 3.3 15.8 + - - -
649D ALA* 3.7 25.9 - - - +
652D LYS* 3.7 28.5 - - + +
653D ALA* 3.7 5.6 - - - +
656D MET* 3.4 19.5 - - + +
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Residues in contact with ILE 607 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603D ASN 2.9 20.9 + - - +
604D THR 3.2 4.7 + - - +
606D ALA* 1.3 73.3 - - - +
608D GLY* 1.3 65.1 + - - +
610D ALA* 3.1 6.1 + - - +
611D VAL* 3.1 25.4 + - + +
656D MET* 4.4 3.8 - - - -
724D PHE* 3.4 48.7 - - + -
787D LEU* 4.1 13.2 - - + -
788D TRP* 3.9 25.8 - - + -
801D TYR* 4.1 8.3 - - + -
804D PHE* 3.6 35.7 - - + -
808D LEU* 4.7 4.7 - - + -
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Residues in contact with GLY 608 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604D THR 2.9 14.7 + - - -
605D MET* 3.7 3.6 - - - -
607D ILE* 1.3 75.4 - - - +
609D ILE* 1.3 62.6 + - - +
611D VAL* 3.1 5.7 + - - +
612D ASP* 3.0 20.8 + - - +
783D GLN* 6.0 1.3 - - - -
787D LEU* 4.0 19.6 - - - +
840D UNX 4.1 18.8 - - - -
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Residues in contact with ILE 609 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
605D MET* 2.9 22.9 + - + +
606D ALA* 3.8 4.3 - - - +
607D ILE 3.3 0.2 - - - -
608D GLY* 1.3 74.6 - - - +
610D ALA* 1.3 63.3 + - - +
612D ASP* 3.2 19.4 + - + +
613D ILE* 3.5 11.1 + - + +
630D ILE* 3.7 35.0 - - + -
650D LEU* 3.7 34.5 - - + -
653D ALA* 3.7 22.4 - - + -
836D UNX 4.4 6.5 - - - -
837D UNX 4.1 17.0 - - - -
838D UNX 4.6 5.2 - - - -
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Residues in contact with ALA 610 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
606D ALA 3.3 10.0 + - - +
607D ILE 3.1 9.8 + - - +
609D ILE* 1.3 77.6 - - - +
611D VAL* 1.3 58.2 + - - +
613D ILE* 3.1 5.1 + - - +
614D LEU* 2.8 31.2 + - + +
653D ALA* 4.7 3.1 - - + -
656D MET* 3.8 15.3 - - - -
659D ILE* 4.4 18.2 - - + -
808D LEU* 3.8 28.9 - - + -
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Residues in contact with VAL 611 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
532D LEU* 4.2 20.0 - - + -
537D LEU* 4.7 15.3 - - + -
607D ILE 3.1 14.7 + - - +
608D GLY* 3.4 7.9 - - - +
610D ALA* 1.3 75.6 - - - +
612D ASP* 1.3 56.3 + - - +
614D LEU* 4.7 0.4 - - - -
615D GLY* 2.7 36.6 + - - +
616D CYS* 3.3 7.2 + - - -
787D LEU* 3.8 13.2 - - + -
804D PHE* 3.6 31.9 - - + -
808D LEU* 4.2 12.1 - - + -
811D LEU* 5.7 5.2 - - + -
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Residues in contact with ASP 612 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
541D LYS* 3.0 48.7 + - - +
544D PHE* 4.1 17.4 - - - -
608D GLY 3.0 10.8 + - - +
609D ILE* 3.3 15.7 - - + +
610D ALA 3.1 0.4 - - - -
611D VAL* 1.3 79.1 - - - +
613D ILE* 1.3 58.6 + - - +
616D CYS* 3.8 18.3 + - - +
617D THR* 3.7 10.0 - - - +
626D THR* 3.1 14.4 - - + +
630D ILE* 4.3 5.2 - - + +
834D UNX 4.2 0.3 - - - -
835D UNX 4.0 15.3 - - - -
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Residues in contact with ILE 613 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609D ILE* 3.8 11.2 - - + +
610D ALA* 3.1 5.1 + - - +
612D ASP* 1.3 77.1 - - - +
614D LEU* 1.3 57.8 - - - +
615D GLY 3.2 4.0 - - - -
617D THR* 2.8 22.6 + - - -
623D ARG* 3.6 28.1 - - + +
626D THR* 4.3 8.5 - - + -
627D LEU* 3.9 24.9 - - + -
630D ILE* 3.6 32.1 - - + -
653D ALA 5.5 1.1 - - - +
654D LEU* 4.3 9.0 - - + -
659D ILE* 3.7 30.1 - - + -
662D LEU* 4.1 16.4 - - + -
665D THR* 5.2 3.6 - - + -
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Residues in contact with LEU 614 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
610D ALA* 2.8 11.5 + - + +
611D VAL 4.7 0.2 - - - +
613D ILE* 1.3 75.5 - - - +
615D GLY* 1.3 57.3 + - - +
617D THR* 4.4 0.2 - - - -
658D GLN* 3.8 15.5 - - + +
659D ILE* 3.7 24.5 - - + -
662D LEU* 3.7 22.9 - - + -
808D LEU* 3.4 42.4 - - + +
811D LEU* 3.5 31.4 - - + +
812D SER* 3.6 31.2 - - - +
815D LEU* 3.7 22.1 - - + +
----------------------------------------------------------
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Residues in contact with GLY 615 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
537D LEU* 6.0 3.1 - - - -
611D VAL* 2.7 22.1 + - - +
613D ILE 3.2 1.4 - - - -
614D LEU* 1.3 76.2 - - - +
616D CYS* 1.3 51.9 + - - +
617D THR* 2.5 29.6 + - - +
811D LEU* 4.9 9.2 - - - -
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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