Contacts of the helix formed by residues 721 - 752 (chain C) in PDB entry 1IW1
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 ASP 721 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
663C VAL* 4.2 1.8 - - - -
712C ARG* 4.1 6.1 + - - -
716C ILE* 3.1 21.5 + - + +
719C ASN* 3.2 12.7 + - + +
720C VAL* 1.3 71.5 - - - +
722C GLY* 1.3 63.4 + - - +
723C PRO* 3.5 6.3 - - - +
724C ALA* 3.2 26.6 + - + +
725C LEU* 2.9 23.0 + - - +
792C HIS* 2.6 34.0 + - - -
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Residues in contact with GLY 722 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
663C VAL* 3.8 15.2 - - - +
666C SER* 6.0 0.2 - - - -
668C PHE* 3.4 26.2 - - - -
720C VAL 3.2 8.8 + - - -
721C ASP* 1.3 70.9 - - - +
723C PRO* 1.3 72.6 - - - +
725C LEU* 3.1 2.8 + - - +
726C VAL* 2.9 26.2 + - - +
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Residues in contact with PRO 723 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
668C PHE* 4.0 22.0 - - + -
721C ASP* 3.5 10.1 - - - +
722C GLY* 1.3 89.3 - - - +
724C ALA* 1.3 61.2 + - - +
726C VAL* 3.3 0.7 + - + -
727C ALA* 3.2 16.8 + - - +
785C LEU* 4.6 0.9 - - + -
789C GLN* 3.7 49.6 - - + +
792C HIS* 4.2 10.1 - - + -
793C LEU* 3.3 27.9 - - + +
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Residues in contact with ALA 724 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712C ARG* 4.1 0.7 - - - +
716C ILE* 3.8 16.2 - - + -
721C ASP* 3.2 32.9 + - - +
723C PRO* 1.3 78.6 - - - +
725C LEU* 1.3 63.4 + - - +
727C ALA* 3.3 4.2 + - - +
728C HIS* 3.2 26.5 + - - -
792C HIS* 3.8 9.5 - - - +
793C LEU* 5.1 0.2 - - - +
796C GLU* 3.8 27.1 - - + +
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Residues in contact with LEU 725 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656C LEU* 3.9 13.9 - - + -
659C ALA* 3.8 27.6 - - + +
660C VAL* 3.8 27.1 - - + +
663C VAL* 3.7 22.9 - - + -
673C LEU* 3.7 34.8 - - + -
713C LEU* 5.4 1.6 - - + -
716C ILE* 3.7 9.6 - - + +
721C ASP 2.9 17.2 + - - +
722C GLY 3.1 3.8 + - - +
724C ALA* 1.3 77.9 - - - +
726C VAL* 1.3 65.5 + - + +
728C HIS* 3.1 6.0 + - + +
729C HIS* 2.9 22.4 + - + +
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Residues in contact with VAL 726 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
663C VAL* 5.8 0.2 - - + -
668C PHE* 4.0 18.4 - - + -
669C ALA* 4.0 18.4 - - + -
672C LEU* 3.7 23.6 - - + -
673C LEU* 5.0 1.3 - - + -
722C GLY 2.9 17.3 + - - +
723C PRO 3.7 7.6 - - - +
724C ALA 3.3 0.2 - - - -
725C LEU* 1.3 82.0 - - + +
727C ALA* 1.3 63.8 + - - +
729C HIS* 3.2 8.0 + - - +
730C TYR* 2.9 22.6 + - + +
776C TYR* 4.5 0.2 + - - -
780C LEU* 3.7 17.9 - - + -
783C LEU* 4.3 6.5 - - + -
793C LEU* 3.8 18.4 - - + -
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Residues in contact with ALA 727 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723C PRO 3.2 7.6 + - - +
724C ALA 3.4 9.9 - - - +
725C LEU 3.2 0.2 - - - -
726C VAL* 1.3 79.5 - - - +
728C HIS* 1.3 61.9 + - - +
730C TYR* 3.4 5.6 + - - +
731C VAL* 3.1 30.6 + - - +
793C LEU* 3.4 34.5 - - + +
796C GLU* 3.7 9.0 - - + -
797C ALA* 3.5 20.9 - - + +
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Residues in contact with HIS 728 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656C LEU* 4.0 19.8 - - + +
709C TYR* 3.8 28.6 + + - +
712C ARG* 4.3 3.0 - - + +
713C LEU* 3.8 11.7 - - + +
716C ILE* 3.3 19.8 - - + +
724C ALA 3.2 19.9 + - - -
725C LEU* 3.1 10.4 + - - +
727C ALA* 1.3 79.2 - - - +
729C HIS* 1.3 60.1 + - - +
731C VAL* 3.5 1.4 + - - +
732C ARG* 3.1 29.7 + - + +
796C GLU* 2.7 30.8 + - + +
800C ALA* 3.6 32.1 - - + +
803C PHE* 4.1 11.7 - + - -
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Residues in contact with HIS 729 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656C LEU* 4.6 2.9 - - - +
660C VAL* 4.0 15.2 - - + +
672C LEU* 3.4 25.3 + - + +
673C LEU* 3.5 31.9 - - + +
674C ASP 5.1 0.6 + - - -
677C LEU* 3.5 24.0 - - + +
725C LEU* 2.9 15.2 + - + +
726C VAL* 3.4 13.5 - - - +
728C HIS* 1.3 73.4 - - - +
730C TYR* 1.3 58.2 + - - +
733C TYR* 2.8 69.4 + + - +
776C TYR* 2.8 26.9 + + - +
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Residues in contact with TYR 730 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
609C ALA* 5.2 1.8 - - + -
612C LEU* 3.8 39.2 - - + -
613C LYS* 3.6 16.8 - - - -
616C THR* 3.9 13.2 + - - -
726C VAL 2.9 15.5 + - - +
727C ALA* 3.6 4.3 - - - +
729C HIS* 1.3 75.6 - - - +
731C VAL* 1.3 78.2 + - + +
734C LEU* 3.2 48.1 + - + +
776C TYR* 3.2 17.4 + + + +
780C LEU* 3.9 20.2 - - + -
797C ALA* 5.1 0.9 - - + -
801C PHE* 4.6 0.4 - + - -
903C HEM 2.8 54.8 + - + +
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Residues in contact with VAL 731 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
727C ALA 3.1 17.5 + - - +
728C HIS 3.5 4.2 + - - +
729C HIS 3.4 0.2 - - - -
730C TYR* 1.3 87.7 - - + +
732C ARG* 1.3 61.8 + - + +
735C GLY 4.0 0.3 + - - -
797C ALA* 3.7 20.4 - - + +
800C ALA* 3.7 12.1 - - + -
801C PHE* 3.7 30.7 - - + -
804C ASN* 4.0 17.3 - - - +
903C HEM 3.5 48.7 - - + +
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Residues in contact with ARG 732 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649C ALA* 5.9 0.8 - - - +
652C PHE* 4.1 13.3 - - + -
653C TYR* 2.7 43.6 + - + +
656C LEU* 4.0 22.7 - - + -
709C TYR* 3.4 19.7 - - - +
728C HIS 3.1 17.9 + - - +
729C HIS 4.4 0.2 - - - +
731C VAL* 1.3 78.8 - - + +
733C TYR* 1.3 61.4 + - + +
735C GLY* 3.4 2.1 + - - -
736C ASP* 2.9 49.6 + - - +
760C PHE* 4.2 6.1 - - - -
804C ASN* 2.7 44.0 + - - +
808C PHE* 4.8 7.5 - - - -
903C HEM 4.3 20.4 - - - +
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Residues in contact with TYR 733 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
653C TYR* 3.8 12.6 - + - -
656C LEU* 3.7 24.4 - - + +
657C GLU* 2.5 41.4 + - - +
660C VAL* 4.6 3.6 - - + +
677C LEU* 3.3 54.5 - - + -
678C ASN* 4.4 2.2 + - - -
679C ARG* 4.1 1.8 - - + -
729C HIS* 2.8 64.6 + + + +
732C ARG* 1.3 68.4 - - - +
734C LEU* 1.3 64.8 + - - +
736C ASP* 3.6 12.2 - - - +
737C LEU* 3.0 29.8 + - + +
763C PHE* 4.8 3.3 - + - -
776C TYR* 5.1 2.0 - - + +
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Residues in contact with LEU 734 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729C HIS 3.9 1.0 + - - -
730C TYR* 3.2 46.1 + - + +
733C TYR* 1.3 78.8 - - - +
735C GLY* 1.3 54.5 + - - +
737C LEU* 3.5 7.3 + - + +
738C SER* 2.7 43.7 + - - +
773C LYS* 4.2 25.1 - - + -
776C TYR* 4.0 36.4 + - + -
777C ARG* 4.2 20.2 - - + +
780C LEU* 5.2 0.2 - - + -
903C HEM 3.8 23.3 - - + +
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Residues in contact with GLY 735 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730C TYR 3.9 2.8 + - - -
731C VAL 4.2 0.2 - - - -
732C ARG 3.4 6.2 + - - -
733C TYR 3.1 0.6 - - - -
734C LEU* 1.3 75.9 - - - +
736C ASP* 1.3 65.1 + - - +
739C GLY* 3.0 23.2 + - - -
740C GLY 3.7 2.4 + - - -
903C HEM 3.4 45.4 + - - -
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Residues in contact with ASP 736 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
653C TYR* 2.5 36.0 + - - -
679C ARG* 4.3 2.3 - - - +
732C ARG* 2.9 35.3 + - - +
733C TYR* 3.3 11.3 + - - +
735C GLY* 1.3 74.4 - - - +
737C LEU* 1.3 59.2 + - - +
740C GLY* 2.9 32.2 + - - +
741C GLN* 4.3 1.6 + - - +
760C PHE* 3.6 21.0 - - + -
761C TYR* 5.2 2.6 - - + +
763C PHE* 3.6 26.5 - - + -
----------------------------------------------------------
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Residues in contact with LEU 737 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
677C LEU* 4.0 10.3 - - + -
733C TYR* 3.0 23.6 + - + +
734C LEU* 3.7 12.6 - - + +
736C ASP* 1.3 76.8 - - - +
738C SER* 1.3 60.4 + - - +
741C GLN* 3.7 8.2 - - - +
763C PHE* 3.6 37.5 - - + -
766C ILE* 4.0 12.1 - - + -
769C LEU* 3.8 30.9 - - + +
772C TYR* 3.9 29.6 - - + -
773C LYS* 3.7 31.2 + - + +
776C TYR* 5.4 4.3 - - + -
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Residues in contact with SER 738 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734C LEU* 2.7 29.6 + - - +
735C GLY 3.2 0.9 + - - -
737C LEU* 1.3 78.5 - - - +
739C GLY* 1.3 59.0 + - - +
741C GLN* 2.9 16.4 + - - +
773C LYS* 3.8 23.5 + - - +
777C ARG* 4.4 6.2 + - - -
903C HEM 3.7 45.4 - - - +
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Residues in contact with GLY 739 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735C GLY 3.0 10.4 + - - -
738C SER* 1.3 76.9 - - - +
740C GLY* 1.3 67.1 + - - +
741C GLN* 3.2 9.4 - - - -
742C VAL* 3.0 22.1 + - - +
743C ILE* 3.5 11.6 + - - +
903C HEM 4.1 27.6 - - - +
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Residues in contact with GLY 740 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735C GLY 3.7 2.2 + - - -
736C ASP* 2.9 26.0 + - - -
739C GLY* 1.3 77.0 - - - +
741C GLN* 1.3 63.8 + - - +
743C ILE* 3.1 7.6 + - - -
744C ALA 3.1 18.5 + - - -
761C TYR* 3.2 34.8 - - - -
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Residues in contact with GLN 741 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
736C ASP 4.3 1.0 - - - +
737C LEU 3.7 9.2 - - - +
738C SER 2.9 28.1 + - - +
739C GLY* 3.4 10.3 - - - -
740C GLY* 1.3 78.2 + - - +
742C VAL* 1.3 77.7 + - + +
744C ALA* 3.9 6.9 - - - +
745C ARG* 3.1 24.4 + - - +
761C TYR* 4.7 9.8 + - - +
762C HIS* 6.2 3.4 - - + -
769C LEU* 4.9 9.2 - - + +
903C HEM 5.8 0.4 - - - +
----------------------------------------------------------
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Residues in contact with VAL 742 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
633C LEU* 5.2 1.8 - - + -
739C GLY* 3.0 11.4 + - - +
741C GLN* 1.3 93.8 - - + +
743C ILE* 1.3 66.4 + - - +
745C ARG* 3.3 5.4 + - - +
746C MET* 3.1 42.2 + - + +
903C HEM 3.6 32.8 - - + -
----------------------------------------------------------
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Residues in contact with ILE 743 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
629C MET* 4.2 21.1 - - + -
632C LEU* 5.5 1.8 - - + -
633C LEU* 3.9 24.2 - - + -
642C PHE* 4.8 2.5 - - + -
645C LEU* 5.8 1.1 - - + -
739C GLY 4.0 12.1 - - - +
740C GLY* 3.1 8.6 + - - +
742C VAL* 1.3 76.0 - - - +
744C ALA* 1.3 63.4 + - - +
746C MET* 3.2 3.1 + - - +
747C MET* 3.0 34.4 + - + +
761C TYR* 3.5 35.9 - - + +
903C HEM 4.2 24.5 - - + -
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Residues in contact with ALA 744 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
740C GLY 3.1 14.2 + - - +
741C GLN* 3.9 6.5 - - - +
743C ILE* 1.3 76.6 - - - +
745C ARG* 1.3 63.5 + - - +
747C MET* 3.2 2.1 + - - +
748C GLN* 3.1 33.2 + - - +
758C LEU* 3.6 21.9 - - + +
761C TYR* 3.8 28.9 - - + -
762C HIS* 4.9 8.7 - - + -
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Residues in contact with ARG 745 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741C GLN 3.1 19.0 + - - +
742C VAL* 3.6 6.5 - - - +
744C ALA* 1.3 75.3 - - - +
746C MET* 1.3 73.9 + - + +
748C GLN* 3.0 46.6 + - - +
749C ARG* 2.8 55.5 + - - +
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Residues in contact with MET 746 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
633C LEU* 3.8 23.6 - - + +
742C VAL* 3.1 27.0 + - + +
743C ILE 3.6 4.3 - - - +
745C ARG* 1.3 108.5 - - + +
747C MET* 1.3 73.8 + - + +
749C ARG* 3.6 36.1 - - - +
750C HIS* 2.8 53.6 + - + +
----------------------------------------------------------
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Residues in contact with MET 747 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632C LEU* 3.7 32.1 - - + +
633C LEU* 4.0 11.2 - - + -
642C PHE* 3.6 46.4 - - + -
743C ILE* 3.0 25.9 + - + +
744C ALA 3.2 6.0 + - - +
746C MET* 1.3 89.6 - - + +
748C GLN* 1.3 58.8 + - - +
751C TYR* 3.0 44.2 + - + +
752C GLY 3.2 6.4 + - - -
753C VAL* 3.3 21.2 + - + +
758C LEU* 4.1 11.0 - - + -
----------------------------------------------------------
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Residues in contact with GLN 748 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
744C ALA* 3.1 22.8 + - - +
745C ARG* 3.0 35.2 + - - +
747C MET* 1.3 75.4 - - - +
749C ARG* 1.3 64.8 + - - +
752C GLY* 3.1 19.2 + - - -
753C VAL 3.2 24.2 - - - +
755C PRO* 3.2 28.0 - - - +
758C LEU* 3.4 20.5 - - + +
762C HIS* 5.4 6.1 + - - -
----------------------------------------------------------
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Residues in contact with ARG 749 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745C ARG* 2.8 41.5 + - - +
746C MET* 3.6 33.6 - - - +
748C GLN* 1.3 77.6 - - - +
750C HIS* 1.3 88.3 + - - +
752C GLY 4.6 0.5 + - - -
----------------------------------------------------------
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Residues in contact with HIS 750 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632C LEU 4.8 0.9 - - - -
633C LEU 3.0 29.9 + - - -
634C LYS* 3.3 17.9 + - - -
635C GLY* 3.6 22.4 - - - -
746C MET* 2.8 41.2 + - + +
749C ARG* 1.3 101.3 + - - +
751C TYR* 1.3 73.6 + - + +
752C GLY 3.8 0.2 - - - -
----------------------------------------------------------
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Residues in contact with TYR 751 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
632C LEU* 2.7 46.2 + - + -
635C GLY* 3.2 24.9 - - - -
637C LEU* 3.0 39.3 + - - +
638C GLY* 3.5 23.6 - - - -
639C VAL* 3.6 30.2 - - + +
747C MET* 3.0 34.1 + - + +
750C HIS* 1.3 89.9 - - + +
752C GLY* 1.3 64.2 - - - +
753C VAL* 3.2 3.8 + - + -
----------------------------------------------------------
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Residues in contact with GLY 752 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
747C MET 3.2 0.2 + - - -
748C GLN 3.1 18.1 + - - -
749C ARG 4.6 0.8 + - - -
750C HIS 3.8 0.6 - - - -
751C TYR* 1.3 78.1 - - - +
753C VAL* 1.3 67.4 + - - +
754C ASP* 3.3 3.1 + - - +
----------------------------------------------------------
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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