Contacts of the helix formed by residues 594 - 620 (chain C) in PDB entry 5MKE
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 ALA 594 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590C MET* 3.1 17.7 + - + +
591C SER* 2.7 30.3 + - - +
593C CYS* 1.3 69.1 - - - +
595C LYS* 1.3 54.8 + - - -
596C ASP* 3.0 4.3 - - - -
597C LEU* 2.6 46.2 + - + +
598C PHE* 4.0 5.1 + - + -
679C ILE* 5.4 4.3 - - - -
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Residues in contact with LYS 595 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583B MET* 6.4 1.8 - - - -
506C PHE* 5.5 14.6 - - + -
591C SER 3.4 6.1 + - - +
592C ARG 4.1 12.1 - - - +
593C CYS* 3.1 3.1 - - - +
594C ALA* 1.3 75.5 - - - +
596C ASP* 1.3 62.7 + - - +
598C PHE* 3.0 48.7 + - + +
599C GLY* 3.7 1.9 + - - -
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Residues in contact with ASP 596 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583B MET* 6.2 0.2 - - - +
684B TYR* 2.5 29.8 + - - -
593C CYS 3.9 5.9 + - - +
594C ALA 2.9 0.4 + - - -
595C LYS* 1.3 80.0 - - - +
597C LEU* 1.3 54.3 + - - +
599C GLY* 2.5 28.1 + - - +
600C PHE* 3.5 20.8 + - - +
679C ILE* 3.0 33.9 - - + +
683C THR* 6.4 0.4 - - + -
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Residues in contact with LEU 597 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594C ALA* 2.6 33.3 + - + +
596C ASP* 1.3 71.9 - - - +
598C PHE* 1.3 73.7 + - + +
601C ALA* 3.0 31.6 + - + +
676C PHE* 5.4 15.7 - - + -
679C ILE* 4.6 8.5 - - + +
1009C PLM 6.2 1.8 - - + -
666D PHE* 4.4 30.5 - - + -
667D PHE* 6.2 2.7 - - + -
670D PHE* 6.0 3.6 - - + -
671D ILE* 6.0 6.7 - - + -
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Residues in contact with PHE 598 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
506C PHE* 5.9 7.6 - + - -
591C SER* 5.6 5.6 - - - -
594C ALA* 4.9 4.5 - - + -
595C LYS* 3.0 43.8 + - + +
597C LEU* 1.3 97.2 - - + +
599C GLY* 1.3 67.4 + - - +
601C ALA* 3.7 14.4 + - + +
602C ILE* 4.1 6.1 + - - +
1009C PLM 6.3 3.8 - - + -
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Residues in contact with GLY 599 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
583B MET* 4.0 32.6 - - - +
595C LYS 3.7 2.7 + - - -
596C ASP* 2.5 24.6 + - - -
598C PHE* 1.3 71.2 - - - +
600C PHE* 1.3 61.2 + - - -
602C ILE* 3.0 25.3 - - - +
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Residues in contact with PHE 600 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
578B ASN* 5.5 4.7 - - - -
583B MET* 4.1 17.7 - - + -
586B LEU* 4.6 12.1 - - + -
587B SER* 3.5 42.8 - - - -
590B MET* 4.8 6.1 - - + -
684B TYR* 5.0 13.7 - + - -
596C ASP* 3.5 23.5 + - - +
599C GLY* 1.3 76.9 - - - +
601C ALA* 1.3 66.5 + - - +
602C ILE 3.1 1.8 - - - +
603C MET* 3.1 50.4 - - + +
604C PHE* 3.3 6.9 + - - +
675C MET* 5.1 17.7 - - + +
679C ILE* 4.7 11.7 - - + -
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Residues in contact with ALA 601 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
597C LEU* 3.0 29.4 + - + +
598C PHE* 3.7 13.0 - - + +
599C GLY 3.3 0.6 - - - -
600C PHE* 1.3 77.4 - - - +
602C ILE* 1.3 57.4 + - - +
604C PHE* 3.2 6.9 + - - +
605C PHE* 2.8 60.1 + - + -
1009C PLM 5.2 3.8 - - + -
666D PHE* 5.7 1.6 - - + -
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Residues in contact with ILE 602 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
577B ILE* 2.6 55.4 - - + -
598C PHE 4.1 4.2 + - - +
599C GLY 3.0 23.3 + - - +
600C PHE* 4.6 0.2 - - - -
601C ALA* 1.3 77.1 - - - +
603C MET* 1.3 65.8 + - + +
605C PHE* 2.6 34.3 + - + -
606C ILE* 2.7 22.9 + - + +
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Residues in contact with MET 603 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574B PHE* 3.7 33.4 - - + -
577B ILE* 6.3 0.9 - - - -
578B ASN* 6.3 0.4 - - - +
587B SER* 5.2 0.4 - - - -
590B MET* 4.0 21.8 - - + +
1008B PLM 4.0 25.4 - - + +
600C PHE* 3.1 52.0 - - + +
602C ILE* 1.3 85.0 - - + +
604C PHE* 1.3 61.8 + - + +
606C ILE* 3.1 11.3 - - - +
607C ILE* 2.9 35.1 + - + +
671C ILE* 5.3 6.7 - - + -
675C MET* 6.0 2.0 - - - -
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Residues in contact with PHE 604 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
600C PHE 3.8 7.4 - - - +
601C ALA* 3.2 10.2 + - - +
602C ILE 2.9 0.4 + - - -
603C MET* 1.3 81.9 - - + +
605C PHE* 1.3 78.2 + + - +
607C ILE* 2.8 14.7 + - + +
608C PHE* 2.2 83.3 + + - -
637C PHE* 4.9 9.6 - + - -
640C ILE* 6.2 1.3 - - + -
664C PHE* 5.8 0.4 - + - -
668C MET* 5.1 8.3 - - + -
671C ILE* 6.2 1.8 - - + -
672C LEU* 4.4 33.2 - - + -
676C PHE* 5.0 12.8 - + + -
666D PHE* 5.8 0.7 - + - -
670D PHE* 5.0 17.9 - + - -
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Residues in contact with PHE 605 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
601C ALA* 2.8 46.4 + - + -
602C ILE* 2.6 18.1 + - + +
604C PHE* 1.3 92.1 - + - +
606C ILE* 1.3 51.8 + - - +
608C PHE* 3.1 8.9 - + + +
609C LEU* 2.3 49.6 + - + +
637C PHE* 6.4 1.6 - + - -
1009C PLM 3.5 34.5 - - + -
1010C PLM 5.7 13.5 - - + -
666D PHE* 4.3 14.4 - + - -
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Residues in contact with ILE 606 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570B TRP* 3.0 28.2 + - + +
571B ILE* 5.8 2.9 - - + -
573B LEU* 1.8 50.0 - - + -
574B PHE* 4.3 19.7 - - + +
577B ILE* 4.9 5.8 - - + -
602C ILE* 2.7 20.8 + - + +
603C MET* 3.1 20.2 - - - +
605C PHE* 1.3 71.1 - - - +
607C ILE* 1.3 79.9 + - + +
609C LEU* 2.8 9.3 + - + +
610C ALA* 2.2 39.9 + - + +
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Residues in contact with ILE 607 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567B PHE* 3.4 33.4 - - + -
571B ILE* 5.0 4.0 - - + -
574B PHE* 6.3 0.7 - - + -
1008B PLM 3.7 23.8 - - + -
603C MET* 3.1 19.3 - - + +
604C PHE* 2.8 34.1 + - + +
606C ILE* 1.3 85.8 - - + +
608C PHE* 1.3 65.4 + - - +
610C ALA* 3.5 3.4 - - + -
611C TYR* 3.0 48.8 + - + -
668C MET* 6.1 4.9 - - + -
671C ILE* 6.0 6.1 - - + -
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Residues in contact with PHE 608 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604C PHE* 2.2 67.5 + + + +
605C PHE* 3.1 13.9 - + - +
607C ILE* 1.3 70.4 - - - +
609C LEU* 1.3 64.6 + - + +
611C TYR* 5.1 0.2 - - - -
612C ALA 3.0 3.6 + - - -
633C ILE* 3.3 32.5 - - + -
636C GLN* 2.2 95.5 + - + +
637C PHE* 3.4 34.1 - + - -
640C ILE* 5.6 2.0 - - + -
664C PHE* 4.8 7.9 - + - -
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Residues in contact with LEU 609 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
570B TRP* 5.2 10.3 - - + -
1005B CHS 4.1 24.7 - - + -
605C PHE* 2.3 39.9 + - + +
606C ILE* 2.8 6.8 + - - +
608C PHE* 1.3 68.9 - - + +
610C ALA* 1.3 53.2 + - - +
612C ALA* 3.8 3.1 - - - -
613C GLN* 2.4 42.2 + - + +
629C PHE* 3.5 34.5 - - + -
633C ILE* 3.5 23.3 - - + -
1010C PLM 4.4 25.4 - - + -
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Residues in contact with ALA 610 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567B PHE* 3.8 30.8 - - + +
570B TRP* 4.7 15.9 - - + +
571B ILE* 4.9 1.6 - - + -
606C ILE 2.2 29.9 + - - +
607C ILE* 3.2 16.8 - - + +
608C PHE 3.0 0.8 + - - -
609C LEU* 1.3 68.9 - - - +
611C TYR* 1.3 54.4 + - - +
613C GLN* 2.9 9.9 + - - +
614C LEU* 2.6 37.3 + - - +
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Residues in contact with TYR 611 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567B PHE* 4.8 4.2 - + - -
1008B PLM 3.5 44.3 - - + +
607C ILE* 3.0 49.8 + - + -
608C PHE* 5.1 0.2 - - - -
610C ALA* 1.3 77.7 - - + +
612C ALA* 1.3 51.1 + - - +
614C LEU* 2.9 13.0 + - + +
615C ALA* 2.1 42.6 + - - +
636C GLN* 3.6 10.1 - - - +
660C TYR* 3.3 35.9 + + + +
663C THR* 3.7 19.1 - - - -
664C PHE* 4.1 27.6 - + + -
667C PHE* 3.8 19.2 - - + +
668C MET* 5.6 2.9 - - + -
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Residues in contact with ALA 612 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
608C PHE 3.0 6.6 + - - +
609C LEU* 3.3 12.6 - - - +
611C TYR* 1.3 74.9 - - - +
613C GLN* 1.3 52.6 + - - +
615C ALA* 2.9 10.0 + - - +
616C TYR* 2.5 36.7 + - - +
626C PHE* 6.0 0.2 - - - -
629C PHE* 4.0 10.3 - - + -
632C CYS* 3.8 21.6 - - - +
633C ILE* 4.1 6.7 - - + -
636C GLN* 3.1 27.9 - - - +
660C TYR* 5.2 0.4 - - - -
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Residues in contact with GLN 613 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
235B CYS* 4.3 11.3 - - - -
566B VAL* 3.5 23.5 - - + +
570B TRP* 2.8 57.6 - - - +
1005B CHS 5.6 8.0 + - - +
609C LEU* 2.4 32.7 + - + +
610C ALA* 3.2 4.2 - - - +
612C ALA* 1.3 66.2 - - - +
614C LEU* 1.3 65.3 + - - +
616C TYR* 2.7 15.4 + - + +
617C LEU* 2.8 30.3 + - + +
629C PHE* 3.7 20.0 - - + -
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Residues in contact with LEU 614 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563B ALA* 3.6 32.1 - - + +
564B VAL* 4.2 9.9 - - + +
566B VAL* 5.7 2.0 - - - +
567B PHE* 4.9 17.9 - - + +
1008B PLM 4.4 24.0 - - + -
610C ALA 2.6 16.5 + - - +
611C TYR* 3.2 13.5 - - + +
613C GLN* 1.3 73.0 - - - +
615C ALA* 1.3 52.9 + - - +
617C LEU* 4.6 4.7 - - - -
618C VAL* 2.6 64.9 + - + +
619C PHE* 5.8 0.4 - - + -
660C TYR* 4.6 21.1 - - + -
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Residues in contact with ALA 615 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
611C TYR 2.1 30.9 + - - +
612C ALA* 3.0 14.1 - - - +
614C LEU* 1.3 67.9 - - - +
616C TYR* 1.3 53.4 + - - +
619C PHE* 2.4 57.1 + - + +
626C PHE* 3.6 31.6 - - + -
627C SER* 4.6 0.4 - - - -
632C CYS* 4.9 0.2 - - - -
660C TYR* 3.9 11.2 - - - +
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Residues in contact with TYR 616 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B THR* 5.6 4.9 - - - -
239B TYR* 6.4 0.7 - - - -
242B MET* 4.0 15.8 + - + +
243B SER 3.5 6.6 + - - -
244B SER* 3.1 33.3 + - - -
1005B CHS 4.6 18.3 + - - -
612C ALA 2.5 15.7 + - - +
613C GLN* 2.7 11.0 + - + +
615C ALA* 1.3 68.2 - - - +
617C LEU* 1.3 75.0 + - + +
620C GLY* 2.4 38.6 + - - -
627C SER* 3.5 43.5 - - - -
629C PHE* 3.8 39.5 - + + -
632C CYS* 4.5 4.6 - - - -
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Residues in contact with LEU 617 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238B THR* 4.6 23.8 - - + +
559B ASN* 4.2 16.1 + - - +
563B ALA* 3.6 26.9 - - + +
566B VAL* 3.5 38.1 - - + -
613C GLN* 2.8 39.7 + - + +
614C LEU* 3.7 5.8 - - - +
616C TYR* 1.3 93.8 - - + +
618C VAL* 1.3 66.1 + - - +
620C GLY* 3.6 4.9 + - - -
621C THR* 4.8 0.9 + - - +
----------------------------------------------------------
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Residues in contact with VAL 618 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
559B ASN* 5.4 2.3 + - - -
560B ASN* 5.4 4.9 - - - +
563B ALA* 4.2 10.1 - - + -
564B VAL* 5.6 2.9 - - + +
614C LEU* 2.6 50.1 + - + +
617C LEU* 1.3 75.3 - - - +
619C PHE* 1.3 86.3 + - + +
621C THR* 3.1 25.5 + - - +
656C LEU* 3.5 41.4 - - + +
657C GLY* 4.9 0.2 - - - -
660C TYR* 6.2 1.1 - - + -
----------------------------------------------------------
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Residues in contact with PHE 619 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
614C LEU* 5.2 0.4 - - + -
615C ALA* 2.4 48.1 + - + +
618C VAL* 1.3 89.6 - - + +
620C GLY* 1.3 50.3 + - - +
621C THR* 2.5 39.2 - - - +
623C VAL* 3.0 24.9 - - + +
626C PHE* 4.4 15.0 - + + -
627C SER* 3.0 7.7 + - - -
649C ILE* 4.0 29.4 - - + -
652C ALA* 4.8 7.6 - - + -
656C LEU* 4.7 1.8 - - + -
657C GLY* 3.8 26.5 - - - -
660C TYR* 3.3 42.4 - + + -
----------------------------------------------------------
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Residues in contact with GLY 620 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
246B VAL* 4.2 5.0 - - - +
247B TYR* 3.3 16.7 + - - -
250B THR* 3.2 15.1 - - - +
459B PRO* 5.7 3.1 - - - +
616C TYR* 2.4 25.2 + - - -
617C LEU 3.6 4.0 + - - -
618C VAL 3.3 2.0 - - - -
619C PHE* 1.3 69.8 - - - +
621C THR* 1.3 61.6 + - - +
627C SER* 3.0 17.9 - - - -
----------------------------------------------------------
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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