Contacts of the helix formed by residues 766 - 793 (chain D) in PDB entry 5UHE
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 ASN 766 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760D PHE* 3.8 0.4 - - - -
764D ALA 4.1 1.4 + - - -
765D LEU* 1.3 76.1 - - - +
767D HIS* 1.3 75.5 + - - +
768D ASP* 3.3 26.1 + - - +
769D GLU* 3.2 35.1 + - + +
770D ARG* 3.0 27.0 + - - +
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Residues in contact with HIS 767 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
760D PHE* 3.6 29.1 - + + -
766D ASN* 1.3 83.4 + - - +
768D ASP* 1.3 59.8 + - - +
769D GLU 3.6 0.2 + - - -
770D ARG* 3.7 28.0 + - - +
771D ASN* 3.5 31.3 + - - +
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Residues in contact with ASP 768 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
766D ASN* 3.3 18.7 - - - +
767D HIS* 1.3 79.1 - - - +
769D GLU* 1.3 63.0 + - - +
771D ASN* 4.2 2.6 + - - +
772D GLU* 3.3 35.4 + - - +
830D GLU* 5.4 3.6 - - - +
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Residues in contact with GLU 769 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
764D ALA 4.9 1.7 - - - +
765D LEU* 4.2 13.9 - - + +
766D ASN* 3.2 42.1 + - + +
767D HIS 3.3 0.6 - - - -
768D ASP* 1.3 80.5 - - - +
770D ARG* 1.3 58.1 + - - +
772D GLU* 3.3 10.4 + - - +
773D ALA* 2.9 32.7 + - - +
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Residues in contact with ARG 770 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
756D VAL* 4.4 11.8 - - + +
757D GLU* 2.8 41.1 + - - +
760D PHE* 3.4 48.0 - - + +
765D LEU* 4.9 6.9 - - + +
766D ASN 3.0 16.1 + - - +
767D HIS* 3.7 20.8 - - - +
769D GLU* 1.3 76.4 - - - +
771D ASN* 1.3 81.2 + - - +
773D ALA* 3.3 5.5 + - - +
774D LEU* 2.9 42.5 + - + +
833D PRO* 5.5 5.3 - - - +
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Residues in contact with ASN 771 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
767D HIS* 3.5 26.8 + - - +
768D ASP* 4.6 3.1 - - - +
769D GLU 3.4 0.2 - - - -
770D ARG* 1.3 103.1 + - - +
772D GLU* 1.3 55.5 + - - +
774D LEU* 3.6 7.2 - - - +
775D VAL* 2.7 44.0 + - + +
830D GLU* 4.9 18.5 + - - +
831D PHE 6.0 0.7 - - - +
833D PRO* 4.2 27.3 - - + +
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Residues in contact with GLU 772 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
768D ASP* 3.3 31.8 + - - +
769D GLU* 3.3 11.3 + - - +
771D ASN* 1.3 78.8 - - - +
773D ALA* 1.3 57.0 + - - +
775D VAL* 4.0 7.1 - - - +
776D GLU* 3.1 33.3 + - + +
830D GLU* 5.7 2.8 + - - +
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Residues in contact with ALA 773 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
756D VAL* 4.7 14.8 - - + -
765D LEU* 6.1 1.8 - - + -
769D GLU 2.9 17.3 + - - +
770D ARG* 3.7 3.8 - - - +
772D GLU* 1.3 75.9 - - - +
774D LEU* 1.3 59.7 + - - +
775D VAL 3.2 1.6 - - - -
776D GLU* 3.0 9.6 + - - +
777D ILE* 2.9 35.3 + - + +
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Residues in contact with LEU 774 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
753D ALA* 4.0 22.9 - - + +
756D VAL* 4.2 13.7 - - + -
757D GLU* 3.6 24.2 - - + +
770D ARG* 2.9 41.6 + - + +
771D ASN* 3.1 6.3 + - - +
773D ALA* 1.3 76.3 - - - +
775D VAL* 1.3 62.8 + - - +
777D ILE* 3.4 21.6 + - + +
778D TRP* 3.1 37.8 + - - +
833D PRO* 4.2 26.9 - - + +
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Residues in contact with VAL 775 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
771D ASN* 2.7 28.8 + - + +
772D GLU* 4.0 8.7 - - - +
774D LEU* 1.3 74.1 - - - +
776D GLU* 1.3 66.1 + - - +
778D TRP* 4.0 1.5 - - - -
779D LYS* 3.0 56.6 + - + +
823D LEU* 4.1 14.1 - - + +
830D GLU* 5.6 5.4 - - + +
831D PHE* 4.0 35.9 - - + +
832D ILE 5.1 3.1 - - - +
833D PRO* 5.2 5.2 - - + -
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Residues in contact with GLU 776 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
772D GLU* 3.1 24.1 - - + +
773D ALA* 3.0 11.1 + - - +
775D VAL* 1.3 88.6 - - - +
777D ILE* 1.3 64.9 + - - +
779D LYS* 3.9 18.0 + - - +
780D GLU* 3.2 25.7 + - - +
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Residues in contact with ILE 777 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
749D TYR* 3.4 47.2 - - + +
752D ARG* 3.7 34.8 - - + +
753D ALA* 3.9 4.7 - - + -
756D VAL* 3.6 31.0 - - + -
773D ALA* 2.9 19.4 + - + +
774D LEU* 3.7 26.7 - - + +
775D VAL 3.3 0.2 - - - -
776D GLU* 1.3 79.0 - - + +
778D TRP* 1.3 61.0 + - + +
780D GLU* 3.6 5.8 + - - +
781D ALA 3.2 18.7 + - - -
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Residues in contact with TRP 778 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
746D LEU* 4.4 20.9 - - + -
749D TYR* 3.8 36.8 - - + -
750D GLU* 3.3 29.4 - - + -
753D ALA* 4.0 18.1 - - + +
774D LEU* 3.1 31.2 + - - +
775D VAL* 4.3 0.7 - - - +
777D ILE* 1.3 77.4 - - + +
779D LYS* 1.3 65.3 + - - +
781D ALA* 3.2 14.1 - - + +
782D THR* 3.1 28.6 + - + +
820D MET* 5.5 1.6 - - + -
823D LEU* 4.1 20.6 - - + -
833D PRO 3.1 26.1 + - - -
835D PRO* 3.4 32.8 - - + +
837D LYS* 4.0 9.2 - - - -
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Residues in contact with LYS 779 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
775D VAL* 3.0 40.6 + - + +
776D GLU* 3.9 20.0 + - - +
778D TRP* 1.3 76.7 - - - +
780D GLU* 1.3 61.0 + - - +
782D THR* 2.6 24.9 + - - -
783D ASP* 3.4 11.9 + - - +
823D LEU* 3.7 19.9 - - + +
831D PHE* 5.7 10.8 - - + -
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Residues in contact with GLU 780 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
748D HIS* 5.9 0.2 + - - -
749D TYR* 3.6 24.7 + - + +
752D ARG* 3.4 23.9 + - - -
776D GLU 3.2 16.9 + - - +
777D ILE* 3.7 4.9 - - - +
779D LYS* 1.3 79.0 - - - +
781D ALA* 1.3 62.9 + - - +
783D ASP* 3.5 9.4 + - + +
784D GLU* 3.4 19.6 + - - +
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Residues in contact with ALA 781 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745D ILE* 4.6 2.0 - - + +
746D LEU* 5.0 8.1 - - + -
749D TYR* 3.7 32.1 - - + -
777D ILE 3.2 14.2 + - - +
778D TRP* 3.2 27.8 - - + +
779D LYS 3.1 0.2 - - - -
780D GLU* 1.3 78.2 - - - +
782D THR* 1.3 62.6 + - + +
784D GLU* 3.3 6.2 + - - +
785D VAL* 3.2 26.0 + - - +
820D MET* 4.7 1.6 - - - -
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Residues in contact with THR 782 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
778D TRP* 3.1 13.8 + - + +
779D LYS* 2.6 25.2 + - - -
781D ALA* 1.3 72.4 - - - +
783D ASP* 1.3 67.3 + - - +
785D VAL* 3.3 2.9 + - - +
786D GLY 3.2 16.3 + - - -
815D ARG* 3.5 28.1 - - - +
820D MET* 3.5 31.0 - - + -
822D GLY* 3.6 25.4 - - - -
823D LEU* 4.7 3.1 - - + +
835D PRO* 6.2 0.4 - - + -
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Residues in contact with ASP 783 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
779D LYS 3.4 11.4 + - - +
780D GLU* 3.7 12.5 - - - +
781D ALA 3.3 0.4 - - - -
782D THR* 1.3 82.2 + - - +
784D GLU* 1.3 58.2 + - - +
786D GLY* 3.0 16.2 + - - -
787D GLN* 3.1 24.5 + - - +
815D ARG* 5.5 1.1 - - - +
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Residues in contact with GLU 784 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
745D ILE* 3.9 33.3 - - + +
748D HIS* 5.1 3.7 - - - -
749D TYR* 2.2 36.0 + - - +
780D GLU 3.4 6.8 + - - +
781D ALA 3.3 9.5 + - - +
783D ASP* 1.3 76.7 - - - +
785D VAL* 1.3 64.1 + - - +
787D GLN* 3.6 11.4 + - + +
788D ALA* 3.3 20.4 + - - +
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Residues in contact with VAL 785 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
739D PRO* 4.2 11.8 - - + +
742D LYS* 4.9 9.6 - - + +
745D ILE* 4.7 16.4 - - + -
746D LEU* 4.9 9.4 - - + -
781D ALA 3.2 16.3 + - - +
782D THR 3.6 6.5 - - - +
783D ASP 3.2 0.4 - - - -
784D GLU* 1.3 77.1 - - - +
786D GLY* 1.3 61.9 + - - +
788D ALA* 3.2 18.7 - - - +
789D LEU* 3.4 10.4 + - - +
815D ARG* 5.1 2.5 - - + -
819D GLY* 3.7 35.9 - - - +
820D MET* 3.6 24.5 - - + +
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Residues in contact with GLY 786 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
782D THR 3.2 8.6 + - - -
783D ASP* 3.0 8.2 + - - -
785D VAL* 1.3 76.2 - - - +
787D GLN* 1.3 65.5 + - - +
789D LEU* 3.0 15.2 + - - +
790D ARG* 3.2 11.8 + - - +
811D PHE* 3.6 24.2 - - - -
815D ARG* 4.4 13.4 - - - +
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Residues in contact with GLN 787 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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783D ASP* 3.1 21.1 + - - +
784D GLU* 3.9 13.9 - - + +
786D GLY* 1.3 74.0 - - - +
788D ALA* 1.3 64.2 + - - +
789D LEU 3.2 0.9 + - - -
790D ARG* 3.4 19.3 + - - +
791D GLU* 3.4 23.2 + - - +
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Residues in contact with ALA 788 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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739D PRO* 4.0 15.9 - - + -
740D PRO* 4.4 1.0 - - - +
741D ARG* 3.2 28.9 + - - +
745D ILE* 4.5 8.5 - - + -
784D GLU 3.3 12.4 + - - +
785D VAL* 3.2 16.8 - - - +
786D GLY 3.1 0.4 - - - -
787D GLN* 1.3 79.9 - - - +
789D LEU* 1.3 57.1 + - - +
791D GLU* 3.9 6.5 - - - +
792D HIS* 3.0 28.2 + - - +
----------------------------------------------------------
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Residues in contact with LEU 789 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737D LEU 3.8 12.1 - - - +
738D VAL 4.8 0.4 - - - -
739D PRO* 3.6 28.3 - - + -
785D VAL 3.4 10.3 + - - +
786D GLY 3.0 9.2 + - - +
788D ALA* 1.3 79.3 - - - +
790D ARG* 1.3 58.3 + - - +
792D HIS* 2.9 5.4 + - - +
793D TYR* 2.5 68.1 + - + +
811D PHE* 3.7 14.1 - - + -
814D THR* 3.8 13.2 - - + +
815D ARG* 4.1 11.7 - - + -
818D ALA* 3.8 20.2 - - + -
819D GLY* 3.9 9.6 - - - +
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Residues in contact with ARG 790 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
786D GLY 3.2 5.8 + - - +
787D GLN* 3.4 16.6 + - - +
789D LEU* 1.3 78.7 - - - +
791D GLU* 1.3 57.9 + - - +
793D TYR* 3.0 24.6 - - - +
795D ASP* 5.3 2.1 - - - +
800D ILE* 5.5 4.8 - - + +
803D VAL* 5.1 0.8 - - - +
804D ASP* 3.4 30.5 + - - -
811D PHE* 3.4 58.8 - - + +
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Residues in contact with GLU 791 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
741D ARG* 2.8 31.2 + - - +
787D GLN* 3.4 19.5 + - - +
788D ALA* 3.9 6.0 - - - +
790D ARG* 1.3 78.6 - - - +
792D HIS* 1.3 66.6 + - - +
793D TYR 4.1 3.1 - - - +
----------------------------------------------------------
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Residues in contact with HIS 792 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
737D LEU* 4.6 24.8 - - + +
738D VAL 3.9 16.7 + - - -
739D PRO* 4.1 2.2 - - - +
740D PRO* 3.2 38.2 - - + +
741D ARG* 5.4 2.0 - - - +
788D ALA 3.0 19.1 - - - +
789D LEU* 2.9 7.4 + - + +
791D GLU* 1.3 83.7 - - + +
793D TYR* 1.3 63.5 + + - +
794D PRO* 3.5 9.0 - - - +
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Residues in contact with TYR 793 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
735D ASP 3.3 20.2 - - - -
736D VAL* 3.3 7.8 - - - +
737D LEU* 2.5 54.8 + - + -
789D LEU* 2.5 56.9 + - + +
790D ARG* 3.0 19.2 - - - +
791D GLU 4.1 3.2 - - - +
792D HIS* 1.3 74.9 - + + +
794D PRO* 1.3 72.0 - - + +
795D ASP* 4.4 3.8 - - - +
797D ASN* 3.7 16.6 - - - -
799D ILE* 5.9 2.0 - - + +
800D ILE* 3.8 33.8 - - + +
814D THR* 4.3 11.6 - - + +
818D ALA* 3.5 6.5 - - + +
----------------------------------------------------------
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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