Contacts of the helix formed by residues 769 - 799 (chain A) in PDB entry 6J8H
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 THR 769 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
768A MET* 1.3 76.0 - - + +
770A GLU* 1.3 69.0 + - - +
771A GLU* 3.4 13.4 + - + +
772A PHE* 3.3 30.2 + - + +
773A LYS* 3.0 20.8 + - - +
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Residues in contact with GLU 770 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
768A MET 4.6 2.0 - - - +
769A THR* 1.3 78.2 + - - +
771A GLU* 1.3 61.3 + - - +
773A LYS* 3.3 7.7 + - - +
774A ASN* 3.3 22.9 + - - +
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Residues in contact with GLU 771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
769A THR* 3.3 9.4 + - + +
770A GLU* 1.3 77.7 - - - +
772A PHE* 1.3 66.0 + - + +
774A ASN* 3.3 6.7 + - - +
775A VAL* 3.2 38.3 + - + +
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Residues in contact with PHE 772 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
763A MET* 4.3 23.1 - - + -
765A HIS* 4.4 18.2 - + - -
768A MET* 4.1 18.8 - - + -
769A THR* 3.3 31.7 + - + +
770A GLU 3.3 0.2 - - - -
771A GLU* 1.3 79.6 - - + +
773A LYS* 1.3 66.6 + - - +
775A VAL* 3.2 18.3 + - + +
776A LEU* 3.0 37.5 + - + +
----------------------------------------------------------
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Residues in contact with LYS 773 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
768A MET* 4.1 32.0 - - + +
769A THR 3.0 16.7 + - - +
770A GLU* 3.7 8.5 - - - +
771A GLU 3.3 0.2 - - - -
772A PHE* 1.3 81.5 - - - +
774A ASN* 1.3 70.8 + - - +
776A LEU* 3.4 13.7 + - + +
777A ALA* 3.4 16.9 + - - +
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Residues in contact with ASN 774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
770A GLU 3.3 10.6 + - - +
771A GLU* 3.8 8.3 - - - +
772A PHE 3.2 0.2 - - - -
773A LYS* 1.3 88.0 - - - +
775A VAL* 1.3 65.9 + - - +
777A ALA* 2.9 21.2 + - - +
778A ILE* 3.0 23.9 + - + +
----------------------------------------------------------
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Residues in contact with VAL 775 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760A PHE* 4.3 12.9 - - + -
771A GLU* 3.2 32.8 + - + +
772A PHE* 3.2 12.7 + - + +
774A ASN* 1.3 75.8 - - + +
776A LEU* 1.3 68.3 + - + +
778A ILE* 3.2 9.0 + - + +
779A GLY* 2.9 21.1 + - - -
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Residues in contact with LEU 776 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760A PHE* 3.8 48.6 - - + +
761A MET* 4.9 2.0 - - + -
763A MET* 4.1 18.6 - - + +
764A GLU* 4.4 11.7 - - + +
768A MET* 5.2 4.5 - - - -
772A PHE* 3.0 42.0 + - + +
773A LYS* 3.5 15.9 - - + +
774A ASN 3.2 0.4 - - - -
775A VAL* 1.3 81.4 - - + +
777A ALA* 1.3 62.5 + - - +
779A GLY* 3.4 0.9 + - - -
780A ASN* 3.0 32.5 + - - +
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Residues in contact with ALA 777 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
773A LYS* 3.4 17.4 + - - +
774A ASN* 2.9 21.4 + - - +
776A LEU* 1.3 80.0 - - - +
778A ILE* 1.3 67.4 + - + +
780A ASN* 3.4 6.9 + - - +
781A LEU* 3.4 21.8 + - - +
835A ARG* 6.3 1.1 - - - +
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Residues in contact with ILE 778 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
774A ASN* 3.0 27.2 + - + +
775A VAL* 3.7 8.5 - - + +
777A ALA* 1.3 80.9 - - + +
779A GLY* 1.3 64.4 + - - +
781A LEU* 3.4 19.5 + - + +
782A VAL* 3.5 20.6 + - + +
----------------------------------------------------------
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Residues in contact with GLY 779 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760A PHE* 3.6 27.8 - - - -
775A VAL* 2.9 11.8 + - - -
778A ILE* 1.3 79.3 - - - +
780A ASN* 1.3 61.3 + - - +
782A VAL* 3.4 9.3 + - - +
783A PHE* 3.3 25.9 + - - -
----------------------------------------------------------
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Residues in contact with ASN 780 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757A ASN* 4.7 5.6 - - - +
760A PHE* 4.5 10.9 - - - -
761A MET* 4.0 24.0 - - - +
776A LEU* 3.0 23.7 + - - +
777A ALA* 3.8 7.2 - - - +
778A ILE 3.3 0.2 - - - -
779A GLY* 1.3 79.1 - - - +
781A LEU* 1.3 58.1 + - - +
783A PHE* 3.2 5.4 + - - +
784A THR* 2.8 34.6 + - - +
835A ARG* 5.1 16.1 + - - +
838A ARG* 3.8 26.7 + - - -
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Residues in contact with LEU 781 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
777A ALA 3.4 10.0 + - - +
778A ILE* 3.7 14.4 - - + +
779A GLY 3.3 0.6 - - - -
780A ASN* 1.3 78.4 - - - +
782A VAL* 1.3 59.6 + - + +
784A THR* 3.2 10.9 + - + -
785A GLY* 2.8 30.8 + - - +
823A LEU* 5.7 12.1 - - + -
----------------------------------------------------------
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Residues in contact with VAL 782 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
778A ILE* 3.5 20.6 + - + +
779A GLY* 3.7 8.7 - - - +
780A ASN 3.3 0.2 - - - -
781A LEU* 1.3 76.9 - - + +
783A PHE* 1.3 72.0 + - + +
785A GLY* 3.3 1.5 + - - -
786A ILE* 3.0 42.8 + - + +
----------------------------------------------------------
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Residues in contact with PHE 783 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
753A CYS* 3.9 33.9 - - + -
756A LEU* 4.3 18.6 - - + -
757A ASN* 3.5 50.3 - - + +
760A PHE* 4.2 22.0 - + + -
779A GLY 3.3 15.3 + - - -
780A ASN* 3.2 8.2 + - - +
781A LEU 3.2 0.4 - - - -
782A VAL* 1.3 89.6 - - + +
784A THR* 1.3 59.1 + - - +
786A ILE* 3.4 5.4 + - + +
787A PHE* 2.7 41.0 + + + -
838A ARG* 4.1 3.1 - - - +
----------------------------------------------------------
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Residues in contact with THR 784 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
780A ASN* 2.8 21.8 + - - -
781A LEU* 3.2 13.7 + - + -
783A PHE* 1.3 77.0 - - - +
785A GLY* 1.3 61.7 + - - +
787A PHE* 3.6 3.3 + - - +
788A ALA* 3.3 22.9 + - + +
816A VAL* 5.0 2.1 - - + +
819A SER* 3.2 38.9 - - - +
820A LEU* 4.8 5.8 - - + +
838A ARG* 2.6 25.6 + - - +
841A ARG* 5.6 0.2 - - - +
----------------------------------------------------------
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Residues in contact with GLY 785 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
781A LEU* 2.8 19.3 + - - +
782A VAL* 3.7 2.0 - - - -
784A THR* 1.3 76.0 - - - +
786A ILE* 1.3 58.3 + - - +
788A ALA* 3.3 4.8 + - - +
789A ALA* 2.8 33.0 + - - +
----------------------------------------------------------
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Residues in contact with ILE 786 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A ILE* 4.4 18.4 - - + -
753A CYS* 4.5 14.1 - - + -
782A VAL* 3.0 31.3 + - + +
783A PHE* 3.9 10.8 - - + +
785A GLY* 1.3 74.8 - - - +
787A PHE* 1.3 64.0 + - + +
789A ALA* 3.5 6.6 + - + +
790A GLU* 3.1 24.9 + - + +
----------------------------------------------------------
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Residues in contact with PHE 787 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A ILE* 4.6 9.6 - - + -
753A CYS* 3.5 28.7 - - - -
754A ILE* 3.1 38.6 - - + -
757A ASN* 3.9 17.9 - - - -
783A PHE* 2.7 36.7 + + + +
784A THR* 4.0 3.4 - - - +
786A ILE* 1.3 76.8 - - - +
788A ALA* 1.3 57.0 + - - +
790A GLU* 2.8 36.5 - - - +
791A MET* 3.3 8.3 + - - +
812A ASP* 5.3 2.0 - - - -
816A VAL* 4.1 12.5 - - + +
838A ARG* 4.7 0.4 - - - -
841A ARG* 2.6 49.1 - - - +
844A LYS* 5.3 0.2 - - - -
----------------------------------------------------------
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Residues in contact with ALA 788 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
784A THR* 3.3 15.7 + - + +
785A GLY* 3.7 4.7 - - - +
786A ILE 3.3 0.2 - - - -
787A PHE* 1.3 78.1 - - - +
789A ALA* 1.3 54.8 + - - +
790A GLU 3.2 0.2 - - - -
791A MET* 3.0 4.2 + - - +
792A VAL* 2.6 38.2 + - - +
816A VAL* 3.4 25.3 - - + +
820A LEU* 4.3 21.1 - - + -
----------------------------------------------------------
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Residues in contact with ALA 789 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
785A GLY 2.8 18.5 + - - +
786A ILE* 3.5 7.6 + - + +
788A ALA* 1.3 75.9 - - - +
790A GLU* 1.3 54.0 + - - +
792A VAL* 2.9 12.9 - - + +
793A LEU* 2.5 40.0 + - + +
----------------------------------------------------------
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Residues in contact with GLU 790 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
750A ILE* 4.1 34.1 - - + +
786A ILE* 3.1 13.5 + - + +
787A PHE* 2.8 34.9 - - - +
789A ALA* 1.3 75.1 - - - +
791A MET* 1.3 55.5 + - - +
793A LEU* 3.6 9.1 - - - +
794A LYS* 2.4 65.8 + - - +
803A TYR* 5.9 0.2 - - - -
812A ASP* 3.8 20.2 - - - +
844A LYS* 3.8 8.3 + - - -
----------------------------------------------------------
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Residues in contact with MET 791 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
787A PHE 3.5 9.6 - - - +
788A ALA* 3.0 11.6 + - - +
790A GLU* 1.3 82.5 - - + +
792A VAL* 1.3 68.4 + - + +
794A LYS* 3.2 2.7 + - - +
795A LEU* 3.0 56.8 + - + +
803A TYR* 2.9 27.0 + - - +
804A PHE* 6.0 1.8 - - + -
812A ASP* 3.8 18.8 - - - +
813A SER* 4.2 26.7 - - - +
816A VAL* 4.2 11.9 - - + -
817A THR* 5.6 3.1 - - - -
----------------------------------------------------------
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Residues in contact with VAL 792 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
788A ALA 2.6 14.6 + - - +
789A ALA* 2.9 24.9 - - + +
791A MET* 1.3 79.6 - - + +
793A LEU* 1.3 76.8 + - + +
795A LEU* 3.2 15.0 + - + +
796A ILE* 3.2 30.1 - - + +
----------------------------------------------------------
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Residues in contact with LEU 793 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737A ILE* 3.2 39.3 - - + +
740A ILE* 4.4 24.5 - - + +
789A ALA 2.5 25.8 + - - +
790A GLU* 3.6 7.9 - - - +
792A VAL* 1.3 74.4 - - + +
794A LYS* 1.3 71.5 + - - +
795A LEU 3.4 0.3 + - - -
796A ILE* 3.4 13.0 + - + +
797A ALA* 5.5 0.2 - - + -
----------------------------------------------------------
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Residues in contact with LYS 794 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737A ILE* 5.2 0.4 - - - -
741A VAL* 5.0 25.1 + - - +
746A VAL* 5.6 4.9 - - - +
747A ASP* 4.9 16.4 + - - +
790A GLU* 2.4 51.0 + - - +
791A MET 3.4 3.8 - - - +
793A LEU* 1.3 80.4 - - - +
795A LEU* 1.3 61.4 + - - +
796A ILE 3.5 0.3 + - - -
797A ALA* 3.5 10.6 + - - +
798A MET* 3.7 23.8 + - + +
803A TYR* 2.8 38.8 - - + +
809A ASN* 4.6 2.5 - - - +
----------------------------------------------------------
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Residues in contact with LEU 795 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A TRP* 5.9 0.5 - - - -
791A MET* 3.0 42.2 + - + +
792A VAL* 3.4 13.2 - - + +
793A LEU 3.2 0.2 - - - -
794A LYS* 1.3 75.1 - - - +
796A ILE* 1.3 68.8 + - + +
799A ASP* 3.1 27.3 + - - -
800A PRO* 4.3 11.2 - - + +
803A TYR* 2.4 63.7 - - + -
804A PHE* 4.2 9.0 - - + -
----------------------------------------------------------
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Residues in contact with ILE 796 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A TRP* 4.3 27.0 + - + +
733A PHE* 5.0 11.2 - - + -
734A LYS* 3.9 15.6 - - - +
737A ILE* 3.6 24.2 - - + +
792A VAL* 3.2 29.2 - - + +
793A LEU* 3.6 16.8 - - + +
794A LYS 3.4 0.2 - - - -
795A LEU* 1.3 79.9 - - + +
797A ALA* 1.3 63.7 + - - +
798A MET 3.6 0.2 + - - -
799A ASP* 4.0 4.2 - - - +
----------------------------------------------------------
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Residues in contact with ALA 797 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734A LYS* 3.2 22.5 - - - +
737A ILE* 2.3 68.9 - - + +
738A TYR* 2.9 14.2 - - - +
741A VAL* 5.2 4.3 - - + -
793A LEU* 5.5 0.2 - - + -
794A LYS* 3.5 8.0 + - - +
795A LEU 3.3 0.6 - - - -
796A ILE* 1.3 76.1 - - - +
798A MET* 1.3 60.3 + - + +
----------------------------------------------------------
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Residues in contact with MET 798 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
734A LYS* 5.0 0.4 - - - +
738A TYR* 4.6 17.3 - - + -
741A VAL* 5.5 10.5 - - + -
794A LYS* 3.7 22.8 + - + +
796A ILE 3.6 0.2 - - - -
797A ALA* 1.3 76.8 - - + +
799A ASP* 1.3 73.7 + - - +
802A GLU* 2.7 49.6 - - + +
803A TYR* 2.9 54.3 - - + +
806A VAL* 5.2 8.5 - - + -
809A ASN* 3.9 4.7 - - - +
----------------------------------------------------------
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Residues in contact with ASP 799 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A TRP* 4.0 14.9 - - - -
734A LYS* 2.1 57.1 + - - +
795A LEU 3.1 16.4 + - - -
796A ILE 4.0 3.6 + - - +
797A ALA 3.7 0.2 - - - -
798A MET* 1.3 82.0 - - - +
800A PRO* 1.4 70.4 - - + +
801A TYR* 3.5 2.7 - - + +
802A GLU* 4.2 10.3 - - + +
803A TYR* 2.9 29.5 + - - +
----------------------------------------------------------
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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