Contacts of the helix formed by residues 695 - 722 (chain A) in PDB entry 5FLM
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 ASP 695 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
694A ALA* 1.3 81.8 - - - +
696A SER* 1.3 64.5 + - - +
697A LYS* 3.1 10.8 - - + +
698A THR* 3.2 22.3 + - - +
699A TYR* 3.3 16.0 + - - -
759A SER* 3.7 15.6 + - - +
199C LYS* 4.8 12.0 + - - -
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Residues in contact with SER 696 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
694A ALA 3.9 0.4 + - - -
695A ASP* 1.3 72.2 - - - +
697A LYS* 1.3 62.1 + - - +
699A TYR* 4.1 13.2 + - - +
700A GLN* 4.0 14.9 + - - +
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Residues in contact with LYS 697 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
695A ASP* 3.1 8.5 - - + +
696A SER* 1.3 79.4 + - - +
698A THR* 1.3 65.0 + - - +
699A TYR 3.2 1.8 - - - -
700A GLN* 3.1 9.9 + - + +
701A ASP* 3.0 36.6 + - - +
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Residues in contact with THR 698 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
694A ALA* 3.9 9.6 - - + -
695A ASP* 3.2 19.0 + - - +
697A LYS* 1.3 78.5 - - - +
699A TYR* 1.3 58.0 + - - +
701A ASP* 3.3 11.2 + - - +
702A ILE* 2.9 46.4 + - + +
755A SER* 4.0 16.8 - - - +
756A ALA* 4.7 2.2 - - - -
759A SER* 3.1 37.3 + - - +
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Residues in contact with TYR 699 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
692A SER 4.6 0.2 + - - -
693A ILE* 3.2 18.7 - - + +
694A ALA* 2.9 43.9 + - + -
695A ASP 3.3 17.4 + - - +
696A SER* 4.1 13.0 - - - +
697A LYS 3.2 0.6 - - - -
698A THR* 1.3 78.5 - - - +
700A GLN* 1.3 58.6 + - - +
702A ILE* 3.4 10.9 + - + +
703A GLN* 2.9 44.9 + - + +
785A ILE* 4.4 15.9 - - + -
828A LEU* 4.0 13.8 - - + +
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Residues in contact with GLN 700 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
696A SER 4.0 9.1 + - - +
697A LYS* 3.1 11.7 + - + +
699A TYR* 1.3 75.2 - - - +
701A ASP* 1.3 66.8 + - - +
703A GLN* 4.2 8.0 - - - +
704A ASN* 2.9 49.6 + - - +
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Residues in contact with ASP 701 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
697A LYS* 3.0 35.4 + - - +
698A THR* 3.4 15.9 + - - +
700A GLN* 1.3 79.8 - - - +
702A ILE* 1.3 62.7 + - - +
704A ASN* 3.2 10.1 + - - +
705A THR* 3.0 26.7 + - - -
755A SER* 4.5 13.9 + - - +
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Residues in contact with ILE 702 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
698A THR* 2.9 43.3 + - + +
699A TYR* 3.8 10.5 - - + +
701A ASP* 1.3 72.2 - - - +
703A GLN* 1.3 59.2 + - + +
705A THR* 3.1 5.4 + - - -
706A ILE* 2.9 49.3 + - + +
752A THR* 4.0 28.9 - - + +
755A SER* 4.4 10.3 - - - +
756A ALA* 4.7 1.1 - - + -
785A ILE* 4.4 11.9 - - + +
786A ALA* 3.6 36.8 - - + +
787A VAL* 4.2 2.2 - - + -
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Residues in contact with GLN 703 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
699A TYR* 2.9 29.9 + - - +
700A GLN* 4.2 6.0 - - - +
702A ILE* 1.3 76.9 - - + +
704A ASN* 1.3 63.2 + - - +
706A ILE* 3.3 14.3 + - + +
707A LYS* 2.9 44.2 + - - +
824A GLU* 5.5 5.8 - - - +
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Residues in contact with ASN 704 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
700A GLN* 2.9 51.3 + - - +
701A ASP* 3.2 10.9 + - - +
703A GLN* 1.3 77.2 - - - +
705A THR* 1.3 62.6 + - - +
707A LYS* 3.4 9.3 + - - +
708A LYS* 2.9 24.3 + - - +
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Residues in contact with THR 705 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
701A ASP 3.0 14.2 + - - -
702A ILE* 3.1 8.1 + - - -
704A ASN* 1.3 76.0 - - - +
706A ILE* 1.3 62.4 + - - +
708A LYS* 3.3 13.1 - - + +
709A ALA* 2.9 21.2 + - - +
748A ALA* 4.4 12.3 - - - +
751A LYS* 3.9 38.0 + - + +
752A THR* 3.7 23.4 - - + +
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Residues in contact with ILE 706 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
702A ILE* 2.9 29.5 + - + +
703A GLN* 3.6 13.5 - - + +
704A ASN 3.2 0.2 - - - -
705A THR* 1.3 76.1 - - - +
707A LYS* 1.3 60.3 + - - +
709A ALA* 3.0 8.4 + - + +
710A LYS* 2.9 41.3 + - + +
748A ALA* 5.5 3.1 - - + -
752A THR* 4.5 5.2 - - + -
786A ALA 5.1 0.4 - - - +
787A VAL* 3.6 31.9 - - + -
822A PHE* 4.7 11.9 - - + -
824A GLU* 3.4 48.9 - - + +
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Residues in contact with LYS 707 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
703A GLN* 2.9 34.2 + - - +
704A ASN* 4.0 9.2 + - - +
706A ILE* 1.3 74.8 - - + +
708A LYS* 1.3 63.4 + - - +
710A LYS* 4.1 9.7 - - + +
711A GLN* 2.9 28.3 + - - +
824A GLU* 5.1 11.2 - - - +
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Residues in contact with LYS 708 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
704A ASN 2.9 14.7 + - - +
705A THR* 3.3 15.9 - - + +
707A LYS* 1.3 77.2 - - - +
709A ALA* 1.3 62.5 + - - +
711A GLN* 3.3 8.2 + - - +
712A ASP* 2.9 45.0 + - - +
751A LYS* 5.1 15.3 - - - +
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Residues in contact with ALA 709 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
705A THR* 2.9 11.3 + - + +
706A ILE* 3.0 8.7 + - - +
708A LYS* 1.3 75.6 - - - +
710A LYS* 1.3 60.5 + - + +
712A ASP* 3.1 8.5 + - - +
713A VAL* 2.9 32.8 + - - +
744A ILE* 3.8 14.9 - - + +
745A LEU* 5.2 6.5 - - + -
748A ALA* 3.5 31.4 - - + -
822A PHE* 6.1 2.0 - - + -
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Residues in contact with LYS 710 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
706A ILE* 2.9 37.0 + - + +
707A LYS* 4.1 9.0 - - + +
709A ALA* 1.3 77.5 - - + +
711A GLN* 1.3 58.0 + - - +
713A VAL* 3.3 10.0 + - - +
714A ILE* 2.9 37.4 + - + +
745A LEU* 5.7 1.1 - - + -
817A PRO* 3.7 22.7 - - + +
818A GLU* 2.6 40.6 + - - +
822A PHE* 5.0 11.4 - - + -
824A GLU* 3.3 20.8 + - + +
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Residues in contact with GLN 711 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
707A LYS 2.9 19.7 + - - +
708A LYS* 3.6 8.9 - - - +
710A LYS* 1.3 77.4 - - - +
712A ASP* 1.3 59.4 + - - +
714A ILE* 3.2 15.4 + - + +
715A GLU* 2.9 42.0 + - + +
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Residues in contact with ASP 712 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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708A LYS* 2.9 41.1 + - - +
709A ALA* 3.1 10.1 + - - +
711A GLN* 1.3 79.5 - - - +
713A VAL* 1.3 62.2 + - - +
715A GLU* 3.1 24.2 + - - +
716A VAL* 2.9 26.4 + - + +
744A ILE* 4.1 21.2 - - + +
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Residues in contact with VAL 713 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
709A ALA 2.9 19.5 + - - +
710A LYS* 3.3 10.1 + - - +
712A ASP* 1.3 75.6 - - - +
714A ILE* 1.3 57.7 + - - +
716A VAL* 3.2 6.2 + - - +
717A ILE* 2.9 49.0 + - + +
741A VAL* 4.3 21.8 - - + -
744A ILE* 3.9 21.8 - - + -
745A LEU* 4.0 23.1 - - + -
815A TYR 5.0 0.2 - - - +
816A GLY* 4.7 0.4 - - - -
817A PRO* 3.7 21.3 - - + -
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Residues in contact with ILE 714 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710A LYS* 2.9 24.2 + - + +
711A GLN* 3.5 15.9 - - + +
713A VAL* 1.3 77.0 - - + +
715A GLU* 1.3 58.9 + - + +
717A ILE* 3.9 7.7 - - + +
718A GLU* 2.9 55.0 + - + +
817A PRO* 5.4 8.5 - - + -
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Residues in contact with GLU 715 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
711A GLN* 2.9 35.6 + - + +
712A ASP* 3.1 25.0 + - - +
714A ILE* 1.3 78.5 - - + +
716A VAL* 1.3 58.0 + - + +
718A GLU* 3.4 8.4 + - - +
719A LYS* 2.9 40.4 + - - +
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Residues in contact with VAL 716 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
712A ASP 2.9 18.4 + - - +
713A VAL* 3.2 7.8 + - - +
715A GLU* 1.3 77.0 - - + +
717A ILE* 1.3 65.3 + - + +
719A LYS* 3.0 22.9 + - + +
720A ALA* 2.9 20.1 + - - +
725A LEU* 5.3 2.4 - - + +
737A PHE* 4.3 17.7 - - + -
740A GLN* 3.4 34.3 - - + +
741A VAL* 4.7 6.7 - - + -
744A ILE* 3.6 22.2 - - + -
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Residues in contact with ILE 717 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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713A VAL* 2.9 32.2 + - + +
714A ILE* 3.9 7.9 - - + +
716A VAL* 1.3 75.0 - - + +
718A GLU* 1.3 59.5 + - + +
720A ALA* 2.9 17.0 + - - +
721A HIS* 2.9 43.6 + - + +
737A PHE* 3.5 29.6 - - + -
741A VAL* 5.2 0.2 - - + -
815A TYR* 3.7 19.1 - - + +
816A GLY* 3.7 33.9 - - - +
108I MET* 5.5 2.7 - - + -
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Residues in contact with GLU 718 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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714A ILE* 2.9 41.1 + - + +
715A GLU* 3.9 7.5 - - - +
717A ILE* 1.3 76.3 - - + +
719A LYS* 1.3 60.7 + - - +
721A HIS* 3.8 16.3 + - + +
722A ASN* 3.8 25.8 + - - -
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Residues in contact with LYS 719 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
715A GLU* 2.9 28.4 + - - +
716A VAL* 3.0 23.0 + - + +
718A GLU* 1.3 78.5 - - - +
720A ALA* 1.3 61.0 + - - +
722A ASN* 3.2 12.2 + - - -
724A GLU* 3.3 43.8 + - + +
725A LEU* 4.5 13.9 - - + +
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Residues in contact with ALA 720 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
716A VAL 2.9 10.6 + - - +
717A ILE 2.9 9.2 + - - +
719A LYS* 1.3 77.1 - - - +
721A HIS* 1.3 62.4 + - - +
723A ASN* 3.3 11.0 + - - +
725A LEU* 4.3 18.8 - - + +
733A LEU* 5.4 2.7 - - + +
737A PHE* 4.0 12.6 - - + -
108I MET* 3.6 51.5 - - + +
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Residues in contact with HIS 721 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
717A ILE* 2.9 48.8 + - + +
718A GLU* 3.8 17.7 - - + +
719A LYS 3.2 0.8 - - - -
720A ALA* 1.3 78.3 - - - +
722A ASN* 1.3 63.7 + - - +
723A ASN 3.3 1.4 + - - -
813A ASP 5.2 8.7 - - - -
815A TYR* 5.7 1.3 - + - -
96I PHE* 5.2 6.0 - + - -
98I GLN* 4.1 16.8 + - + -
108I MET* 3.9 10.4 + - + +
109I ARG* 3.8 5.5 - - - +
110I LEU* 3.2 65.6 + - + +
125I GLU 4.6 5.9 - - - +
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Residues in contact with ASN 722 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
718A GLU 3.8 14.3 + - - +
719A LYS* 3.2 8.8 + - - +
721A HIS* 1.3 79.9 - - - +
723A ASN* 1.3 62.9 + - - +
724A GLU* 3.1 32.9 + - + +
109I ARG* 5.9 0.2 - - - -
110I LEU* 6.1 0.2 - - - +
112I TYR* 5.5 3.3 + - - -
125I GLU* 5.3 16.0 - - - +
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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