Contacts of the helix formed by residues 743 - 772 (chain A) in PDB entry 1ZUC
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 HIS 743 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741A ASN 3.9 0.6 + - - -
742A LEU* 1.3 74.5 - - - +
744A ILE* 1.3 68.2 + - + +
745A ASP* 3.0 52.4 + - - +
746A ASP* 3.0 16.9 + - - +
747A GLN* 3.0 16.5 + - - +
836A ARG* 3.6 28.7 + - + -
837A SER* 2.8 22.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 744 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742A LEU 3.3 1.5 + - - +
743A HIS* 1.3 76.8 + - + +
745A ASP* 1.3 65.3 + - - +
747A GLN* 3.2 22.6 + - + +
748A ILE* 3.0 40.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 745 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
743A HIS* 3.0 21.6 + - + +
744A ILE* 1.3 80.3 - - - +
746A ASP* 1.3 59.3 + - - +
748A ILE* 3.5 13.0 + - - +
749A THR* 3.0 34.9 + - - +
836A ARG* 2.8 46.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 746 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
742A LEU* 4.2 9.6 - - + +
743A HIS* 3.0 14.5 + - - +
745A ASP* 1.3 76.3 - - - +
747A GLN* 1.3 66.5 + - - +
749A THR* 3.6 2.9 - - - -
750A LEU* 2.9 31.2 + - + +
835A LEU* 3.6 30.4 - - + +
836A ARG* 2.9 30.4 + - - +
837A SER* 2.7 40.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 747 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
733A SER* 5.4 0.8 + - - -
734A LYS* 5.7 10.3 - - - +
739A PHE* 3.5 54.7 - - + +
740A ARG* 3.3 19.3 - - - +
742A LEU* 2.9 22.5 - - + +
743A HIS 3.0 13.9 + - - +
744A ILE* 3.5 25.0 + - + +
746A ASP* 1.3 76.1 - - - +
748A ILE* 1.3 62.7 + - + +
750A LEU* 3.4 0.4 + - - -
751A ILE* 3.1 31.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 748 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
744A ILE* 3.0 31.2 + - + +
745A ASP* 3.7 13.5 - - - +
747A GLN* 1.3 76.5 - - + +
749A THR* 1.3 59.2 + - - +
751A ILE* 3.3 7.7 + - - +
752A GLN* 2.9 56.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 749 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745A ASP* 3.0 20.8 + - - +
746A ASP* 3.6 7.4 - - - -
748A ILE* 1.3 76.6 - - - +
750A LEU* 1.3 53.1 + - - +
752A GLN* 3.3 4.7 + - - -
753A TYR* 2.8 75.7 + - + +
831A PRO* 3.9 19.8 - - + +
835A LEU* 4.6 5.2 - - + -
916A GLN* 5.0 8.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 750 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
739A PHE* 3.8 16.2 - - + -
742A LEU* 3.6 31.0 - - + -
746A ASP 2.9 23.4 + - - +
747A GLN 3.9 3.4 - - - +
749A THR* 1.3 72.6 - - - +
751A ILE* 1.3 61.6 + - - +
753A TYR* 3.8 4.7 - - + +
754A SER* 2.8 31.0 + - - -
826A LEU* 3.8 18.7 - - + +
827A LEU* 4.0 11.7 - - + -
829A THR 3.3 25.6 - - - +
830A ILE* 4.3 5.4 - - + -
835A LEU* 4.3 12.8 - - + -
841A PHE* 4.1 21.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 751 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726A LEU* 4.2 15.7 - - + -
729A VAL* 4.0 22.0 - - + -
730A VAL* 4.1 32.1 - - + -
733A SER* 3.6 25.6 - - - +
739A PHE* 4.1 14.6 - - + -
747A GLN* 3.1 24.5 + - + +
748A ILE* 3.8 5.6 - - - +
750A LEU* 1.3 77.7 - - - +
752A GLN* 1.3 61.0 + - + +
754A SER* 3.6 4.9 + - - -
755A TRP* 2.9 31.1 + - + +
826A LEU* 4.2 9.0 - - + -
912A VAL* 5.8 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 752 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
748A ILE* 2.9 41.5 + - + +
749A THR 3.8 2.2 - - - +
751A ILE* 1.3 81.6 - - + +
753A TYR* 1.3 61.7 + - - +
754A SER 3.6 0.2 + - - -
755A TRP* 4.1 6.4 + - - +
888A HIS* 5.8 0.5 + - - -
911A GLU* 4.5 17.0 + - - +
912A VAL* 3.8 45.4 - - + +
915A ALA* 3.9 11.4 - - - +
916A GLN* 2.9 44.3 + - + +
917A LEU* 5.6 1.6 - - - +
920A ILE* 4.4 2.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 753 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
749A THR* 2.8 41.7 + - + +
750A LEU* 3.8 5.4 - - - +
752A GLN* 1.3 72.2 - - - +
754A SER* 1.3 60.9 + - - +
755A TRP 3.6 0.4 + - - -
757A SER* 5.5 0.9 + - - -
826A LEU 6.0 0.4 - - - +
829A THR* 3.5 42.4 + - + +
830A ILE* 3.5 24.9 - - - -
831A PRO* 3.5 22.1 - - - +
888A HIS* 4.3 14.4 + - - -
916A GLN* 3.4 28.9 + - + -
919A LYS* 4.4 6.6 + - - +
920A ILE* 4.0 25.9 - - + +
924A MET 4.9 0.3 + - - -
925A VAL* 3.4 26.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 754 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A LEU 2.8 21.6 + - - -
751A ILE* 3.6 2.3 + - - -
753A TYR* 1.3 76.4 - - - +
755A TRP* 1.3 67.8 + - - +
756A MET 3.4 2.5 - - - -
757A SER* 2.7 30.6 + - - -
758A LEU* 2.8 18.4 + - - +
825A LEU 3.8 18.8 - - - -
826A LEU* 3.5 25.4 - - - +
829A THR* 6.6 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 755 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 5.1 1.6 - + - -
722A GLY 4.2 0.4 + - - -
726A LEU* 3.7 25.9 - - + +
729A VAL* 5.7 5.3 - - + +
751A ILE* 2.9 18.3 + - - +
752A GLN 4.1 7.4 + - - +
753A TYR 3.6 1.4 - - - -
754A SER* 1.3 76.3 - - - +
756A MET* 1.3 104.3 + - + +
758A LEU* 3.3 7.8 + - - +
759A MET* 2.6 70.6 + - + +
888A HIS* 5.0 1.1 - - - -
891A CYS* 4.0 5.8 - - - -
909A MET* 3.2 33.8 - - + -
912A VAL* 3.4 24.5 - - + -
913A ILE* 3.7 31.0 - - + -
917A LEU* 4.4 17.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 756 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 4.1 33.9 - - + -
753A TYR 5.1 0.2 + - - -
754A SER 3.4 0.6 - - - -
755A TRP* 1.3 112.2 - - + +
757A SER* 1.3 58.0 + - - +
759A MET* 3.2 5.7 + - - +
760A VAL* 2.9 28.6 + - - +
884A VAL* 4.1 5.2 - - + -
887A LEU* 3.7 44.6 - - + +
888A HIS* 3.4 32.6 + - + +
891A CYS* 3.8 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 757 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
753A TYR 5.5 0.9 + - - -
754A SER* 2.7 33.7 + - - -
756A MET* 1.3 78.1 - - - +
758A LEU* 1.3 57.2 + - - +
760A VAL* 3.4 2.8 - - - +
761A PHE* 3.0 30.8 + - - +
825A LEU* 3.5 29.1 + - - +
880A LEU* 5.6 1.1 - - - +
884A VAL* 3.9 30.5 - - - +
888A HIS* 5.2 0.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 758 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729A VAL* 3.8 39.3 - - + -
732A TRP* 4.1 16.2 - - + -
754A SER* 2.8 36.5 + - - +
755A TRP* 3.8 4.9 - - - +
757A SER* 1.3 76.0 + - - +
759A MET* 1.3 59.0 + - - +
761A PHE* 3.8 3.3 - - - +
762A GLY* 2.9 27.2 + - - -
822A LYS* 3.5 44.6 - - + +
825A LEU* 3.9 14.8 - - + -
826A LEU* 3.9 11.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 759 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 3.6 33.0 + - + -
722A GLY* 3.2 34.8 - - - +
725A GLN* 3.2 35.8 - - + +
726A LEU 3.8 5.2 - - - +
729A VAL* 5.6 5.6 - - + -
755A TRP* 2.6 60.5 + - + +
756A MET* 3.2 6.7 + - - +
758A LEU* 1.3 80.0 - - + +
760A VAL* 1.3 56.9 + - - +
762A GLY* 3.5 1.1 + - - -
763A LEU* 2.9 27.7 + - - +
766A ARG* 4.4 0.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 760 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 3.8 6.9 - - + -
756A MET 2.9 16.0 + - - +
757A SER* 3.4 16.8 - - - +
759A MET* 1.3 74.6 - - - +
761A PHE* 1.3 64.3 + - - +
763A LEU* 3.4 6.2 + - + +
764A GLY* 3.0 23.6 + - - -
801A MET* 3.6 31.1 - - + +
804A ILE* 3.8 25.3 - - + +
880A LEU* 5.4 1.3 - - + -
883A LEU* 4.4 2.9 - - + -
884A VAL* 4.1 15.5 - - + -
887A LEU* 3.6 26.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 761 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757A SER 3.0 19.1 + - - +
758A LEU* 3.8 4.0 - - - +
760A VAL* 1.3 76.6 - - + +
762A GLY* 1.3 62.5 + - - +
764A GLY* 3.1 3.6 + - - -
765A TRP 3.1 17.7 + - - -
804A ILE* 4.3 9.0 - - + -
808A PHE* 3.4 32.8 - + - -
818A PHE* 3.5 39.2 - + - -
821A MET* 3.6 26.5 - - + -
822A LYS* 3.7 34.5 - - + -
825A LEU* 3.6 12.6 - - + -
876A LEU* 4.0 17.5 - - + -
877A LEU* 4.3 2.9 - - + -
880A LEU* 3.7 20.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 762 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
758A LEU 2.9 17.0 + - - -
759A MET* 3.9 1.1 - - - -
761A PHE* 1.3 74.6 - - - +
763A LEU* 1.3 64.3 + - - +
765A TRP* 3.2 3.7 + - - +
766A ARG* 3.0 42.8 + - - +
818A PHE* 4.3 15.0 - - - -
822A LYS* 5.0 3.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 763 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 3.9 7.9 - - + +
759A MET 2.9 19.3 + - - +
760A VAL* 3.5 8.1 - - + +
762A GLY* 1.3 76.1 - - - +
764A GLY* 1.3 59.1 + - - +
766A ARG* 3.6 14.9 - - - +
767A SER* 2.7 45.9 + - - +
776A LEU* 4.0 12.8 - - + -
777A TYR 3.6 25.6 - - - +
778A PHE* 3.6 37.0 - - + +
801A MET* 3.8 33.0 - - + +
805A PRO* 6.0 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 764 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760A VAL 3.0 14.4 + - - -
761A PHE 3.1 4.8 + - - -
763A LEU* 1.3 76.3 - - - +
765A TRP* 1.3 56.6 - - - +
768A TYR* 3.0 31.2 + - - +
804A ILE* 4.1 7.6 - - - -
805A PRO* 3.5 31.8 - - - +
808A PHE* 3.7 7.0 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 765 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
695A GLU* 5.3 2.7 + - - -
761A PHE 3.1 6.1 + - - -
762A GLY 3.5 7.0 - - - +
764A GLY* 1.3 74.6 - - - +
766A ARG* 1.3 65.8 + - + +
768A TYR* 3.3 32.5 - + - +
769A LYS* 2.8 67.5 + - + +
808A PHE* 3.5 9.2 - + - -
813A VAL* 3.8 13.0 - - + -
814A SER* 3.7 1.1 - - - -
815A GLN* 3.4 47.5 - - + +
818A PHE* 3.4 64.0 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 766 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 2.8 33.1 + - - -
725A GLN* 3.4 12.6 - - - +
759A MET 4.4 0.8 + - - -
762A GLY* 3.0 30.2 + - - +
763A LEU* 3.6 13.7 - - - +
765A TRP* 1.3 82.9 - - + +
767A SER* 1.3 57.6 + - - +
769A LYS* 4.5 1.6 - - - -
770A HIS* 2.9 49.3 + - + +
777A TYR* 3.1 39.6 + - + +
778A PHE 3.0 15.2 + - - -
779A ALA* 5.5 0.9 - - - +
780A PRO* 6.0 0.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 767 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
763A LEU* 2.7 32.0 + - - +
764A GLY 3.8 3.1 - - - -
766A ARG* 1.3 72.6 - - - +
768A TYR* 1.3 57.7 + - - +
771A VAL* 2.9 26.4 + - - +
773A GLY* 2.7 23.6 + - - -
775A MET 3.1 18.0 + - - -
776A LEU* 3.5 3.0 - - - +
777A TYR* 2.9 22.7 + - - -
805A PRO* 4.0 16.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 768 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
764A GLY 3.0 19.4 + - - +
765A TRP* 3.3 34.1 - + - +
767A SER* 1.3 77.2 - - - +
769A LYS* 1.3 71.1 + - + +
772A SER* 3.4 16.9 + - - -
773A GLY* 3.6 11.1 - - - +
805A PRO* 4.5 2.7 - - + -
808A PHE* 3.8 33.2 - - + -
809A VAL* 3.7 27.4 - - + -
812A GLN* 3.6 17.8 - - + +
813A VAL 2.9 29.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 769 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
765A TRP* 2.8 68.8 + - + +
766A ARG* 4.0 2.5 - - - +
768A TYR* 1.3 85.0 - - + +
770A HIS* 1.3 71.8 + - + +
772A SER 4.8 0.7 + - - -
815A GLN* 6.0 1.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 770 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698A VAL* 6.4 1.8 - - + -
766A ARG* 2.9 46.1 + - + +
769A LYS* 1.3 83.7 - - + +
771A VAL* 1.3 63.4 + - + +
772A SER 3.7 0.9 - - - -
777A TYR* 3.5 49.8 + + + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 771 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
767A SER* 2.9 26.6 + - - +
770A HIS* 1.3 82.4 - - + +
772A SER* 1.3 65.7 + - - +
773A GLY 3.1 2.0 - - - -
774A GLN* 2.8 27.9 + - - +
775A MET* 3.3 51.4 - - + +
777A TYR* 4.2 22.0 - - + -
783A ILE* 4.7 8.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 772 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
767A SER 3.3 1.0 + - - -
768A TYR* 3.4 13.4 + - - -
769A LYS 4.7 0.6 + - - -
770A HIS 3.7 1.4 - - - -
771A VAL* 1.3 77.8 - - - +
773A GLY* 1.3 57.0 + - - +
774A GLN* 3.0 26.1 + - - -
809A VAL* 3.5 18.3 - - - +
----------------------------------------------------------
Back to top of page
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