Contacts of the helix formed by residues 710 - 736 (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 THR 710 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
708A PRO 3.8 4.8 + - - +
709A ASP* 1.3 78.6 - - - +
711A SER* 1.3 66.4 + - - +
712A SER* 3.6 10.0 + - - -
713A SER* 3.1 26.6 + - - -
714A LEU* 3.0 26.0 + - - +
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Residues in contact with SER 711 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710A THR* 1.3 74.7 - - - +
712A SER* 1.3 60.9 + - - +
714A LEU* 3.8 8.1 - - - +
715A LEU* 3.1 40.9 + - - +
791A GLU* 4.3 24.5 - - - +
794A PHE* 5.0 9.4 - - - +
890A TYR* 5.3 1.0 + - - -
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Residues in contact with SER 712 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710A THR* 3.2 9.7 + - - -
711A SER* 1.3 81.4 - - - +
713A SER* 1.3 59.3 + - - +
715A LEU* 3.4 2.3 + - - +
716A THR* 2.9 33.8 + - - -
901A LEU 3.2 26.5 - - - -
902A SER* 3.8 18.8 + - - -
903A VAL* 4.1 9.9 - - - +
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Residues in contact with SER 713 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703A HIS* 4.5 5.5 + - - -
704A ASP* 6.1 1.6 - - - -
708A PRO 4.8 1.5 + - - -
709A ASP* 3.8 9.9 - - - +
710A THR* 3.1 32.3 + - - -
712A SER* 1.3 82.4 + - - +
714A LEU* 1.3 59.7 + - - +
716A THR* 3.6 7.7 + - - +
717A SER* 3.0 30.3 + - - -
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Residues in contact with LEU 714 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703A HIS* 4.9 6.5 - - - +
709A ASP* 4.2 18.6 - - + +
710A THR 3.0 16.8 + - - +
711A SER* 3.8 7.2 - - - +
713A SER* 1.3 76.8 + - - +
715A LEU* 1.3 59.3 + - - +
717A SER* 3.2 4.1 + - - -
718A LEU* 3.0 34.8 + - + +
782A LEU* 3.8 21.8 - - + -
784A LEU* 3.8 30.5 - - + -
788A ARG* 3.6 25.8 - - - +
794A PHE* 3.9 28.7 - - + -
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Residues in contact with LEU 715 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 3.9 35.2 - - + +
711A SER* 3.1 29.6 + - - +
712A SER* 3.9 2.2 - - - +
714A LEU* 1.3 72.4 - - + +
716A THR* 1.3 60.0 + - - +
718A LEU* 3.2 6.8 + - + +
719A ASN* 2.9 34.5 + - - +
794A PHE* 4.0 19.1 - - + -
890A TYR* 3.8 23.3 - - + +
894A THR* 4.5 11.4 - - + +
901A LEU* 5.9 2.5 - - + -
903A VAL* 3.8 30.7 - - + -
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Residues in contact with THR 716 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712A SER 2.9 20.9 + - - -
713A SER* 3.6 8.9 - - - +
715A LEU* 1.3 75.7 - - - +
717A SER* 1.3 58.9 + - - +
719A ASN* 3.2 3.3 + - - +
720A GLN* 3.0 28.8 + - + +
902A SER 3.8 4.0 + - - -
903A VAL* 3.6 4.1 - - - +
904A GLU* 3.1 59.3 + - + +
906A PRO* 5.6 0.2 - - - +
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Residues in contact with SER 717 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701A ALA* 4.0 6.5 + - - +
702A GLY 5.2 0.5 + - - -
703A HIS* 2.6 48.1 - - - +
704A ASP* 4.2 4.7 + - - -
713A SER 3.0 15.0 + - - -
714A LEU* 3.2 5.8 + - - -
716A THR* 1.3 76.1 - - - +
718A LEU* 1.3 57.3 - - - +
720A GLN* 3.2 7.4 + - - +
721A LEU* 2.9 29.6 + - - +
782A LEU* 4.0 11.9 - - - -
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Residues in contact with LEU 718 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 3.5 49.0 - - + +
714A LEU* 3.0 21.1 + - + +
715A LEU* 3.2 11.2 + - + +
717A SER* 1.3 73.3 - - - +
719A ASN* 1.3 61.4 + - - +
721A LEU* 4.2 3.8 - - + -
722A GLY* 2.8 23.6 + - - -
778A PHE* 3.3 48.5 - - + -
782A LEU* 4.0 13.0 - - + -
784A LEU* 5.3 0.4 - - + -
794A PHE* 3.9 33.7 - - + -
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Residues in contact with ASN 719 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 2.8 32.6 + - - -
715A LEU 2.9 13.1 + - - +
716A THR 3.2 1.8 + - - +
718A LEU* 1.3 75.9 - - - +
720A GLN* 1.3 53.6 + - - +
722A GLY* 3.2 1.4 + - - -
723A GLU 2.8 28.2 + - - -
903A VAL* 3.3 24.7 - - - +
904A GLU 3.1 28.8 + - - +
905A PHE* 3.4 24.7 - - - -
906A PRO* 3.7 19.8 - - + +
909A MET* 3.7 12.3 - - + +
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Residues in contact with GLN 720 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701A ALA 3.3 20.4 - - - +
702A GLY 5.8 0.2 - - - +
716A THR* 3.0 15.4 + - + +
717A SER* 3.2 10.3 + - - +
719A ASN* 1.3 71.5 - - - +
721A LEU* 1.3 66.0 + - - +
723A GLU* 3.1 16.3 + - - +
724A ARG* 2.9 53.2 + - - +
906A PRO* 3.9 21.9 - - + +
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Residues in contact with LEU 721 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 4.0 12.3 - - - +
699A ILE* 3.8 22.4 - - + +
700A TYR 3.8 6.5 - - - +
701A ALA* 3.7 33.8 + - + +
717A SER 2.9 15.7 + - - +
718A LEU* 3.7 4.9 - - + +
720A GLN* 1.3 78.5 - - - +
722A GLY* 1.3 55.7 + - - +
724A ARG* 3.2 4.4 + - - +
725A GLN* 2.9 51.6 + - - +
778A PHE* 3.6 42.2 - - + +
779A ALA* 4.0 5.2 - - + -
782A LEU* 4.5 3.6 - - + -
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Residues in contact with GLY 722 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 4.2 2.6 - - - -
718A LEU 2.8 21.4 + - - -
719A ASN 3.2 3.1 + - - -
720A GLN 3.2 0.2 - - - -
721A LEU* 1.3 73.2 - - - +
723A GLU* 1.3 56.3 + - - +
726A LEU* 2.9 27.9 + - - +
759A MET* 3.2 29.6 - - - +
909A MET* 3.5 15.3 - - - +
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Residues in contact with GLU 723 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
719A ASN 2.8 16.0 + - - +
720A GLN* 3.1 15.4 + - - +
722A GLY* 1.3 73.8 - - - +
724A ARG* 1.3 62.5 + - + +
726A LEU* 3.4 5.1 + - - +
727A LEU* 3.3 17.0 + - - +
906A PRO* 3.3 23.6 - - + +
907A GLU* 3.4 8.1 + - - +
908A MET* 2.8 53.0 + - + +
909A MET* 2.8 36.8 + - - +
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Residues in contact with ARG 724 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699A ILE* 3.7 18.3 - - + +
700A TYR* 3.0 34.9 + - - +
701A ALA 3.9 11.5 + - - -
702A GLY* 3.8 16.6 - - - +
720A GLN* 2.9 41.2 + - - +
721A LEU* 3.6 5.4 - - - +
723A GLU* 1.3 76.5 - - + +
725A GLN* 1.3 63.6 + - - +
727A LEU* 3.4 10.2 + - - +
728A SER* 3.2 19.9 + - - -
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Residues in contact with GLN 725 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A T98 3.1 29.6 + - - -
699A ILE* 4.0 21.3 + - + +
721A LEU* 2.9 39.7 + - + +
724A ARG* 1.3 74.9 - - - +
726A LEU* 1.3 59.5 + - - +
728A SER* 3.0 10.1 + - - +
729A VAL* 2.9 33.5 + - + +
759A MET* 3.2 41.3 - - + +
766A ARG* 3.4 17.5 + - - +
778A PHE 4.0 1.2 + - - -
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Residues in contact with LEU 726 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
722A GLY 2.9 16.5 + - - +
723A GLU 3.5 6.3 - - - +
724A ARG 3.3 0.4 - - - -
725A GLN* 1.3 75.9 - - - +
727A LEU* 1.3 62.9 + - - +
729A VAL* 3.2 8.7 + - + +
730A VAL* 3.1 31.5 + - + +
751A ILE* 4.2 22.9 - - + -
755A TRP* 3.7 27.1 - - + -
759A MET* 3.8 4.4 - - + +
908A MET* 3.7 44.2 - - + +
909A MET* 3.7 11.9 - - + +
912A VAL* 3.9 17.5 - - + -
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Residues in contact with LEU 727 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
723A GLU 3.3 9.6 + - - +
724A ARG* 3.6 12.1 - - - +
725A GLN 3.3 0.2 - - - -
726A LEU* 1.3 77.9 - - - +
728A SER* 1.3 58.9 + - - +
730A VAL* 3.4 9.0 + - + +
731A LYS* 2.9 62.7 + - + +
908A MET* 4.4 21.9 - - + +
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Residues in contact with SER 728 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696A PRO* 4.0 22.2 - - - +
699A ILE* 3.5 31.0 - - - +
724A ARG 3.2 6.3 + - - -
725A GLN* 3.0 12.3 + - - +
727A LEU* 1.3 77.4 - - - +
729A VAL* 1.3 62.3 + - - +
731A LYS* 3.8 7.4 - - - +
732A TRP* 2.8 32.3 + - - +
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Residues in contact with VAL 729 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696A PRO* 6.1 0.2 - - - -
725A GLN* 2.9 21.4 + - + +
726A LEU* 3.2 12.3 + - + +
728A SER* 1.3 76.7 + - - +
730A VAL* 1.3 61.0 + - - +
732A TRP* 3.4 15.8 + - + +
733A SER* 2.9 28.6 + - - -
751A ILE* 4.0 30.1 - - + +
755A TRP* 5.7 4.9 - - - +
758A LEU* 3.8 38.8 - - + -
759A MET* 5.6 7.0 - - + -
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Residues in contact with VAL 730 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
726A LEU* 3.1 21.2 + - + +
727A LEU* 3.9 10.8 - - + +
729A VAL* 1.3 73.9 - - - +
731A LYS* 1.3 65.7 + - + +
733A SER* 2.8 24.3 + - - +
734A LYS* 3.2 29.6 - - + +
751A ILE* 4.1 30.3 - - + -
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Residues in contact with LYS 731 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
727A LEU* 2.9 53.1 + - + +
728A SER* 3.8 6.7 - - - +
730A VAL* 1.3 76.2 - - + +
732A TRP* 1.3 62.4 + - - +
734A LYS* 3.1 25.7 + - + +
735A SER* 3.7 8.0 + - - -
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Residues in contact with TRP 732 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
691A LEU* 5.1 3.6 + - + +
694A ILE* 3.5 51.6 - - + +
695A GLU* 4.2 8.1 + - - -
696A PRO* 4.5 11.7 - - + -
728A SER 2.8 21.6 + - - +
729A VAL* 3.5 23.3 - - + +
731A LYS* 1.3 72.4 - - - +
733A SER* 1.3 70.4 + - - +
735A SER* 3.1 17.4 + - - -
736A LEU* 3.2 28.6 + - + +
758A LEU* 4.1 18.4 - - + -
819A LEU 5.6 0.2 - - - -
822A LYS* 3.6 44.7 - - + +
823A VAL* 4.1 22.0 - - + -
826A LEU* 3.9 24.2 - - + -
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Residues in contact with SER 733 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
729A VAL 2.9 15.7 + - - -
730A VAL* 2.8 18.9 + - - +
732A TRP* 1.3 87.4 - - - +
734A LYS* 1.3 63.8 + - - +
736A LEU* 3.3 17.8 + - - +
739A PHE* 3.5 45.6 - - - +
740A ARG 4.5 2.3 + - - -
747A GLN* 5.4 1.4 + - - -
751A ILE* 3.6 20.7 - - - +
826A LEU* 5.1 1.8 - - - -
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Residues in contact with LYS 734 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
730A VAL* 3.2 29.4 - - + +
731A LYS* 3.4 15.3 - - + +
732A TRP 3.1 0.8 - - - -
733A SER* 1.3 78.8 - - - +
735A SER* 1.3 60.8 + - - +
736A LEU 5.2 0.4 - - - -
740A ARG* 4.4 24.7 - - - +
747A GLN* 5.7 9.5 - - - +
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Residues in contact with SER 735 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A SO4 5.2 2.0 + - - -
690A LEU* 3.9 7.1 - - - +
694A ILE* 3.8 30.4 - - - +
731A LYS 3.7 6.7 + - - -
732A TRP* 3.1 9.2 + - - -
734A LYS* 1.3 80.8 + - - +
736A LEU* 1.3 60.5 + - - +
737A PRO* 3.4 10.2 - - - +
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Residues in contact with LEU 736 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203A SO4 4.4 1.6 + - - -
691A LEU* 3.5 31.0 - - + -
694A ILE* 3.9 6.1 - - + -
732A TRP* 3.2 24.7 + - + +
733A SER* 3.3 14.9 + - - +
735A SER* 1.3 75.2 - - - +
737A PRO* 1.4 70.5 - - - +
738A GLY 3.2 0.5 + - - -
739A PHE* 3.0 20.4 + - + +
740A ARG* 4.3 3.5 + - - +
823A VAL* 3.6 19.3 - - + -
826A LEU* 3.2 34.3 - - + -
844A MET* 3.9 17.5 - - + -
848A TYR* 3.5 15.9 - - + +
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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