Contacts of the helix formed by residues 699 - 728 (chain Z) in PDB entry 5WTI
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 PRO 699 (chain Z).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698Z LYS* 1.3 89.2 - - + +
700Z TYR* 1.3 65.1 + - - +
701Z LYS* 3.5 6.0 + - + +
702Z ASP* 4.3 25.6 - - + +
703Z TRP* 3.1 25.7 + - - +
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Residues in contact with TYR 700 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
657Z GLN* 3.4 19.3 + - - -
658Z GLN* 3.2 36.1 - - - -
661Z ASP* 4.9 17.3 - - + -
698Z LYS 3.7 1.4 + - - -
699Z PRO* 1.3 73.1 - - - +
701Z LYS* 1.3 69.9 + - - +
702Z ASP 3.2 0.9 + - - -
703Z TRP* 3.2 30.4 + + + -
704Z VAL* 3.3 34.5 + - + +
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Residues in contact with LYS 701 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699Z PRO* 3.4 4.1 - - + +
700Z TYR* 1.3 85.9 - - + +
702Z ASP* 1.3 71.0 + - - +
704Z VAL* 4.4 4.6 + - - +
705Z ALA* 4.2 10.7 + - - +
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Residues in contact with ASP 702 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699Z PRO* 3.7 22.9 + - + +
700Z TYR 3.2 0.4 - - - -
701Z LYS* 1.3 88.8 - - - +
703Z TRP* 1.3 59.3 + - - +
704Z VAL 3.6 0.2 - - - -
705Z ALA* 3.4 23.0 - - + +
706Z PHE* 3.4 8.7 + - - +
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Residues in contact with TRP 703 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
656Z PHE* 4.1 25.6 - - + -
657Z GLN* 5.8 1.1 - - - -
658Z GLN 4.5 6.5 - - - -
662Z ILE* 6.0 1.8 - - - -
665Z ARG* 3.4 36.8 - - + -
669Z VAL* 6.2 3.4 - - + -
692Z ILE* 5.8 4.4 + - - +
695Z LEU* 4.6 17.0 + - + -
696Z MET* 5.4 9.4 - - - -
698Z LYS* 4.6 19.1 - - + -
699Z PRO 3.1 16.7 + - - +
700Z TYR* 3.2 36.6 + + + -
702Z ASP* 1.3 76.3 - - - +
704Z VAL* 1.3 60.8 + - + +
705Z ALA 3.0 1.1 - - - -
706Z PHE* 2.7 41.6 + + + +
707Z LEU* 3.0 31.8 + - + +
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Residues in contact with VAL 704 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
657Z GLN* 4.3 32.4 + - + +
700Z TYR* 3.3 45.4 + - + +
701Z LYS 4.5 5.2 - - - +
703Z TRP* 1.3 77.9 - - + +
705Z ALA* 1.3 58.9 + - - +
707Z LEU* 3.5 7.8 + - + +
708Z LYS* 3.0 32.6 + - + +
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Residues in contact with ALA 705 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701Z LYS 4.2 4.8 + - - +
702Z ASP* 3.4 21.3 + - + +
703Z TRP 3.0 0.6 - - - -
704Z VAL* 1.3 79.7 - - - +
706Z PHE* 1.3 60.4 + - - +
708Z LYS* 4.1 5.5 - - - +
709Z GLN* 3.3 23.2 + - - +
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Residues in contact with PHE 706 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
691Z GLN* 3.5 35.2 - - + -
692Z ILE* 3.6 29.6 - - + -
695Z LEU* 4.7 10.3 - - + -
702Z ASP 3.4 4.8 + - - +
703Z TRP* 2.7 44.7 + + + +
705Z ALA* 1.3 72.2 - - - +
707Z LEU* 1.3 62.1 + - + -
709Z GLN* 3.1 25.2 - - + +
710Z LEU* 2.9 39.0 + - + +
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Residues in contact with LEU 707 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
653Z VAL* 3.3 40.3 - - + +
656Z PHE* 3.3 30.7 - - + +
657Z GLN* 4.0 15.0 - - + +
692Z ILE* 5.7 5.6 - - + -
703Z TRP* 3.0 57.1 + - + +
704Z VAL* 4.0 3.1 - - + -
706Z PHE* 1.3 78.8 - - + +
708Z LYS* 1.3 57.5 + - - +
709Z GLN 3.0 1.6 - - - -
710Z LEU* 3.5 10.3 - - + +
711Z HIS* 2.4 38.7 + - - +
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Residues in contact with LYS 708 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
657Z GLN* 4.2 10.1 - - - +
704Z VAL* 3.0 24.5 + - + +
705Z ALA* 4.1 6.7 - - - +
707Z LEU* 1.3 76.6 - - - +
709Z GLN* 1.3 56.1 + - - +
711Z HIS* 4.2 5.7 - - - +
712Z LYS* 3.2 26.0 + - - +
----------------------------------------------------------
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Residues in contact with GLN 709 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705Z ALA 3.3 16.0 + - - +
706Z PHE* 3.1 36.1 - - + +
707Z LEU 3.0 0.2 - - - -
708Z LYS* 1.3 77.2 - - - +
710Z LEU* 1.3 64.6 + - + +
711Z HIS 3.2 0.9 - - - -
712Z LYS* 4.0 9.3 - - - +
713Z ARG* 3.3 27.0 + - + +
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Residues in contact with LEU 710 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649Z PHE* 4.3 12.6 - - + -
653Z VAL* 3.6 28.7 - - + -
689Z LEU* 5.4 7.6 - - - +
692Z ILE* 5.3 8.1 - - + -
706Z PHE* 2.9 40.8 + - + +
707Z LEU* 2.9 11.9 + - + +
709Z GLN* 1.3 80.3 - - + +
711Z HIS* 1.3 60.9 + - - +
713Z ARG* 3.7 29.5 - - - +
714Z LEU* 3.2 43.9 + - + +
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Residues in contact with HIS 711 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
650Z LEU* 3.6 36.9 + - + +
653Z VAL* 3.6 23.5 - - + +
654Z LEU* 3.9 27.5 - - + +
657Z GLN* 5.4 3.6 - - - +
707Z LEU 2.4 21.8 + - - +
708Z LYS* 4.2 6.5 - - - +
710Z LEU* 1.3 72.1 - - - +
712Z LYS* 1.3 65.4 + - - +
714Z LEU* 3.2 0.5 + - - +
715Z GLU* 3.1 48.7 + - - +
760Z ARG* 3.8 15.4 + - - -
761Z PRO 4.8 4.3 + - - -
762Z THR* 5.1 5.6 + - - -
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Residues in contact with LYS 712 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B G 4.4 16.4 - - + +
708Z LYS 3.2 19.3 + - - +
709Z GLN* 4.0 9.0 - - - +
710Z LEU 3.5 0.4 - - - -
711Z HIS* 1.3 81.0 - - - +
713Z ARG* 1.3 72.2 + - - +
715Z GLU* 3.4 20.9 - - - +
716Z VAL* 3.7 12.1 - - + +
----------------------------------------------------------
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Residues in contact with ARG 713 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
709Z GLN* 3.3 18.1 + - + +
710Z LEU* 3.7 28.7 - - - +
712Z LYS* 1.3 92.5 - - - +
714Z LEU* 1.3 80.4 + - - +
716Z VAL* 4.1 5.0 + - - +
717Z GLU* 3.8 29.4 + - - +
----------------------------------------------------------
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Residues in contact with LEU 714 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
649Z PHE* 3.5 37.7 - - + -
650Z LEU* 3.6 19.3 - - + -
653Z VAL* 4.5 1.6 - - + -
710Z LEU* 3.2 36.6 + - + +
711Z HIS 3.2 1.4 + - - -
713Z ARG* 1.3 99.4 - - - +
715Z GLU* 1.3 60.6 + - - +
716Z VAL 3.2 0.2 - - - -
717Z GLU* 3.3 20.1 + - + +
718Z ILE* 2.9 46.0 + - + +
----------------------------------------------------------
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Residues in contact with GLU 715 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B G 2.6 41.3 + - - +
58B A 3.2 25.6 + - + +
650Z LEU* 4.0 19.4 - - + +
711Z HIS* 3.1 30.0 + - - +
712Z LYS* 3.4 12.0 - - - +
714Z LEU* 1.3 78.0 - - - +
716Z VAL* 1.3 60.5 + - + +
719Z GLY* 2.8 23.6 + - - -
757Z TRP* 3.7 4.7 - - - -
760Z ARG* 3.4 30.4 + - - +
----------------------------------------------------------
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Residues in contact with VAL 716 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B G 3.3 30.7 - - - +
58B A 3.6 35.3 + - + +
712Z LYS* 3.7 14.1 + - + +
713Z ARG* 4.4 5.4 - - - +
714Z LEU 3.2 0.8 - - - -
715Z GLU* 1.3 79.5 - - + +
717Z GLU* 1.3 59.0 + - + +
719Z GLY* 3.3 2.1 + - - -
720Z LYS* 2.9 40.5 + - - +
----------------------------------------------------------
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Residues in contact with GLU 717 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646Z LYS* 5.9 0.7 - - - +
713Z ARG* 3.8 25.1 + - - +
714Z LEU* 3.3 26.8 + - - +
716Z VAL* 1.3 79.6 - - + +
718Z ILE* 1.3 69.6 + - + +
720Z LYS* 3.0 11.9 + - + +
721Z GLU* 2.8 50.3 + - - +
----------------------------------------------------------
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Residues in contact with ILE 718 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
643Z MET* 5.2 4.3 - - - +
646Z LYS* 3.4 55.6 - - + +
647Z LEU* 5.9 1.1 - - + -
649Z PHE* 6.4 0.2 - - + -
650Z LEU* 4.6 13.5 - - + -
714Z LEU* 2.9 38.3 + - + +
717Z GLU* 1.3 82.2 - - + +
719Z GLY* 1.3 54.0 + - - +
721Z GLU* 4.1 7.4 - - - +
722Z VAL* 2.7 46.4 + - + +
753Z PHE* 6.1 0.7 - - + -
757Z TRP* 3.7 24.7 - - + -
----------------------------------------------------------
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Residues in contact with GLY 719 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B G 2.5 49.4 + - - +
715Z GLU 2.8 20.6 + - - -
716Z VAL 3.5 2.9 - - - -
718Z ILE* 1.3 78.2 - - - +
720Z LYS* 1.3 56.3 + - - +
723Z LYS* 3.3 11.6 + - - +
757Z TRP* 3.6 10.7 - - - -
----------------------------------------------------------
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Residues in contact with LYS 720 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B A 4.5 12.8 - - - +
59B G 5.1 2.9 - - - -
716Z VAL* 2.9 29.9 + - + +
717Z GLU* 3.0 13.4 + - + +
719Z GLY* 1.3 77.3 - - - +
721Z GLU* 1.3 62.8 + - + +
723Z LYS* 3.5 9.0 - - - +
724Z HIS* 3.5 19.4 + - - +
----------------------------------------------------------
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Residues in contact with GLU 721 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
643Z MET* 3.3 19.6 - - + +
646Z LYS* 2.7 41.1 + - - +
717Z GLU* 2.8 41.0 + - + +
718Z ILE* 3.0 6.9 + - + +
720Z LYS* 1.3 77.4 - - + +
722Z VAL* 1.3 62.7 + - - +
723Z LYS 3.2 0.2 - - - -
724Z HIS* 3.6 6.8 + - - +
725Z TRP* 3.1 15.9 + - - +
----------------------------------------------------------
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Residues in contact with VAL 722 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B G 3.1 26.5 - - - +
60B A 4.2 7.4 - - - +
643Z MET* 3.4 28.9 - - - -
718Z ILE* 2.7 36.2 + - + +
719Z GLY* 3.8 1.3 - - - -
721Z GLU* 1.3 70.4 - - - +
723Z LYS* 1.3 60.4 + - - +
725Z TRP* 3.6 9.9 - - + +
726Z ARG* 2.8 32.4 + - - +
753Z PHE* 4.3 18.2 - - + -
754Z LEU* 6.3 1.8 - - + -
757Z TRP* 3.8 21.1 - - + +
----------------------------------------------------------
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Residues in contact with LYS 723 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51B G 5.5 3.1 - - - -
52B G 5.7 6.3 + - - -
59B G 3.4 27.1 + - - +
60B A 3.1 33.0 + - - +
719Z GLY 3.3 17.4 + - - +
720Z LYS* 3.5 11.7 - - - +
721Z GLU 3.2 0.4 - - - -
722Z VAL* 1.3 82.0 - - - +
724Z HIS* 1.3 63.5 + - - +
726Z ARG* 3.4 2.8 + - - +
727Z LYS* 3.2 44.0 + - + +
----------------------------------------------------------
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Residues in contact with HIS 724 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720Z LYS 3.5 9.3 + - - +
721Z GLU* 4.0 7.6 - - - +
722Z VAL 3.3 0.2 - - - -
723Z LYS* 1.3 79.0 - - + +
725Z TRP* 1.3 65.9 + - - +
727Z LYS* 3.0 11.9 + - + +
728Z SER* 3.0 46.1 + - - -
----------------------------------------------------------
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Residues in contact with TRP 725 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
636Z ARG 5.3 2.0 + - - -
639Z ASN* 4.3 33.6 - - + +
640Z LEU* 3.5 25.6 - - + +
643Z MET* 3.6 24.2 - - + -
721Z GLU 3.1 18.6 + - - +
722Z VAL* 3.1 12.8 + - + +
724Z HIS* 1.3 78.2 - - - +
726Z ARG* 1.3 69.6 + - + +
728Z SER* 3.4 14.2 + - - +
729Z LEU* 3.5 27.3 + - + +
750Z THR* 3.6 33.7 - - + -
753Z PHE* 3.7 36.6 - + - -
754Z LEU* 4.4 16.6 - - + -
----------------------------------------------------------
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Residues in contact with ARG 726 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48B C 3.9 20.8 + - - -
50B G 3.8 20.7 + - - -
60B A 4.4 13.5 - - - +
61B A 2.5 36.4 + - - +
722Z VAL 2.8 16.3 + - - +
723Z LYS* 3.8 6.3 - - - +
725Z TRP* 1.3 83.3 - - + +
727Z LYS* 1.3 77.6 + - + +
728Z SER 3.2 1.6 + - - -
729Z LEU* 3.5 43.5 + - + +
754Z LEU* 4.7 15.4 - - + +
777Z ALA* 5.5 3.8 - - - +
780Z GLN* 4.8 17.4 - - - +
----------------------------------------------------------
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Residues in contact with LYS 727 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50B G 4.2 33.6 + - - +
51B G 3.2 41.2 + - - +
60B A 4.5 13.1 + - - -
61B A 6.0 0.4 + - - -
723Z LYS* 3.2 29.5 + - + +
724Z HIS* 3.0 16.9 + - + +
726Z ARG* 1.3 93.2 - - - +
728Z SER* 1.3 58.4 + - - +
729Z LEU 3.6 1.1 + - - -
730Z SER 5.4 0.3 + - - -
731Z ASP* 4.1 6.6 - - - +
----------------------------------------------------------
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Residues in contact with SER 728 (chain Z).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
636Z ARG* 4.5 3.1 + - - -
724Z HIS* 3.0 40.9 + - - -
725Z TRP* 3.4 8.9 + - - -
726Z ARG 3.2 0.6 - - - -
727Z LYS* 1.3 79.0 + - - +
729Z LEU* 1.3 62.8 + - - +
730Z SER 3.3 3.0 + - - -
731Z ASP* 3.4 35.3 + - - +
----------------------------------------------------------
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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