Contacts of the helix formed by residues 768 - 798 (chain A) in PDB entry 6FF7
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 768 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
405 U 3.6 8.3 - - - +
415 U 3.3 27.5 + - - +
766A THR* 3.5 7.0 - - - -
767A VAL* 1.3 76.9 - - - +
769A LYS* 1.3 63.1 + - - +
770A THR* 4.3 4.5 - - - +
771A VAL* 3.9 23.6 - - + +
772A CYS* 3.2 23.7 + - - +
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Residues in contact with LYS 769 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232 A 5.8 0.2 - - - -
405 U 4.5 9.4 + - - +
57 HIS* 4.4 22.7 - - + -
767A VAL 3.5 4.1 + - - +
768A ASP* 1.3 71.8 - - - +
770A THR* 1.3 61.6 + - - +
772A CYS* 4.7 3.4 - - - -
773A LYS* 2.9 34.9 + - + +
1249A MET* 6.4 2.2 - - + -
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Residues in contact with THR 770 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232 A 4.4 23.7 - - - +
768A ASP* 3.3 4.8 - - - +
769A LYS* 1.3 79.0 - - - +
771A VAL* 1.3 57.2 + - - +
773A LYS* 3.8 0.5 - - - +
774A LYS* 2.9 33.8 + - - +
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Residues in contact with VAL 771 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
757A ASN* 5.5 12.9 - - + +
766A THR* 5.7 6.1 - - - -
768A ASP* 3.5 22.3 + - + +
769A LYS 3.4 0.2 - - - -
770A THR* 1.3 78.9 - - - +
772A CYS* 1.3 57.1 + - - +
774A LYS* 3.5 4.6 + - - +
775A ASN* 2.9 31.8 + - - +
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Residues in contact with CYS 772 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
761A ILE* 5.7 7.6 - - + -
768A ASP 3.2 18.1 + - - +
769A LYS* 4.2 3.8 - - - +
771A VAL* 1.3 77.7 - - - +
773A LYS* 1.3 57.0 + - - +
775A ASN* 3.3 6.0 + - - +
776A LEU* 3.0 28.2 + - - +
900A ASP* 6.1 4.5 - - + -
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Residues in contact with LYS 773 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232 A 3.6 40.5 - - + +
769A LYS* 2.9 20.8 + - + +
772A CYS* 1.3 77.0 - - - +
774A LYS* 1.3 58.8 + - - +
776A LEU* 4.0 14.7 - - - +
777A GLY 4.1 1.6 + - - -
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Residues in contact with LYS 774 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222 U 5.3 3.8 - - - +
232 A 3.9 32.6 - - + +
770A THR 2.9 21.6 + - - +
771A VAL* 3.7 4.7 - - - +
773A LYS* 1.3 76.6 - - - +
775A ASN* 1.3 59.4 + - - +
776A LEU 3.2 0.2 - - - -
777A GLY* 3.3 4.2 + - - -
778A ARG* 2.9 27.5 + - - +
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Residues in contact with ASN 775 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
754A ALA* 5.7 5.8 - - + +
757A ASN* 5.7 6.7 - - + -
758A ARG* 5.5 14.4 - - + +
771A VAL 2.9 19.3 + - - +
772A CYS* 3.8 6.1 - - - +
774A LYS* 1.3 72.5 - - - +
776A LEU* 1.3 63.8 + - - +
778A ARG* 3.5 11.1 - - - -
779A LEU* 3.1 25.5 + - - +
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Residues in contact with LEU 776 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
772A CYS 3.0 16.0 + - - +
773A LYS* 4.0 11.7 - - - +
774A LYS 3.2 0.2 - - - -
775A ASN* 1.3 76.5 - - - +
777A GLY* 1.3 57.3 + - - +
779A LEU* 3.3 3.7 + - - +
780A THR* 3.0 30.2 + - - -
898A PHE* 5.5 10.4 - - + +
900A ASP* 5.4 11.9 - - + -
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Residues in contact with GLY 777 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232 A 4.2 21.9 - - - +
242 A 4.5 9.8 + - - -
773A LYS 4.1 3.2 + - - -
774A LYS 3.3 7.5 + - - -
776A LEU* 1.3 76.7 - - - +
778A ARG* 1.3 56.3 + - - +
779A LEU 3.2 4.9 + - - -
780A THR* 4.4 6.5 - - - -
781A ARG* 3.6 24.6 + - - +
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Residues in contact with ARG 778 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
232 A 4.4 10.7 - - - +
750A TRP 5.9 0.7 - - - +
754A ALA* 3.8 29.1 - - + +
774A LYS 2.9 18.4 + - - +
775A ASN* 3.5 11.7 - - - -
776A LEU 3.3 0.6 - - - -
777A GLY* 1.3 74.8 - - - +
779A LEU* 1.3 58.0 + - - +
781A ARG* 5.1 1.8 - - - -
782A LEU* 4.9 6.8 - - - +
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Residues in contact with LEU 779 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
775A ASN 3.1 14.1 + - - +
776A LEU* 4.1 2.0 - - - +
778A ARG* 1.3 80.7 - - - +
780A THR* 1.3 59.1 + - - +
781A ARG 3.3 1.6 - - - -
782A LEU* 3.3 10.7 + - + +
783A TYR* 3.0 29.3 + - - +
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Residues in contact with THR 780 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
776A LEU 3.0 18.8 + - - -
777A GLY* 3.8 5.6 + - - -
779A LEU* 1.3 72.7 - - - +
781A ARG* 1.3 61.2 + - - +
783A TYR* 4.0 4.2 - - - +
784A LEU* 2.9 33.1 + - - +
897A GLU* 6.2 1.3 - - - -
898A PHE* 5.2 12.6 - - - -
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Residues in contact with ARG 781 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
242 A 5.8 2.0 - - - +
721A LYS* 4.3 20.6 - - + +
777A GLY 3.6 17.1 + - - +
778A ARG* 5.4 1.8 - - - -
779A LEU 3.3 0.6 - - - -
780A THR* 1.3 78.3 - - - +
782A LEU* 1.3 56.8 + - - +
784A LEU* 4.0 3.4 - - - +
785A LYS* 2.9 33.3 + - - +
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Residues in contact with LEU 782 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
778A ARG 4.9 4.7 - - - +
779A LEU* 3.3 16.8 + - - +
780A THR 3.3 0.6 - - - -
781A ARG* 1.3 80.1 - - - +
783A TYR* 1.3 57.6 + - - +
785A LYS* 3.9 3.7 - - - +
786A ALA* 3.0 29.5 + - - +
----------------------------------------------------------
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Residues in contact with TYR 783 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
779A LEU 3.0 16.4 + - - +
780A THR* 4.1 4.7 - - - +
782A LEU* 1.3 75.7 - - - +
784A LEU* 1.3 59.3 + - - +
786A ALA* 3.4 5.7 + - - +
787A GLU* 2.9 29.0 + - - +
224R MET* 6.5 2.0 - - + -
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Residues in contact with LEU 784 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
780A THR 2.9 19.4 + - - +
781A ARG* 4.1 3.8 - - - +
783A TYR* 1.3 76.5 - - - +
785A LYS* 1.3 58.0 + - - +
787A GLU* 3.3 7.3 + - - +
788A GLN* 3.0 28.1 + - - +
1022A MET* 5.3 13.2 - - + -
1024A HIS* 5.4 2.5 - - + +
----------------------------------------------------------
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Residues in contact with LYS 785 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
720A TRP 5.9 0.7 - - - +
721A LYS 5.9 2.5 - - - +
722A ALA 6.1 0.2 - - - -
723A ASN* 4.3 24.9 - - + -
781A ARG 2.9 18.5 + - - +
782A LEU* 4.1 4.3 - - - +
784A LEU* 1.3 73.5 - - - +
786A ALA* 1.3 60.6 + - - +
788A GLN* 3.5 5.0 + - - +
789A GLU* 2.9 29.0 + - - +
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Residues in contact with ALA 786 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
782A LEU 3.0 18.3 + - - +
783A TYR* 3.8 7.2 - - - +
785A LYS* 1.3 75.5 - - - +
787A GLU* 1.3 57.3 + - - +
789A GLU* 3.4 7.1 + - - +
790A ARG* 2.9 28.9 + - - +
215R LEU 5.9 2.7 - - - +
224R MET* 6.1 5.2 - - + -
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Residues in contact with GLU 787 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
783A TYR 2.9 18.1 + - - +
784A LEU* 3.6 8.7 - - - +
785A LYS 3.3 0.4 - - - -
786A ALA* 1.3 76.6 - - - +
788A GLN* 1.3 57.8 + - - +
790A ARG* 3.3 4.4 + - - +
791A GLN* 2.9 28.6 + - - +
----------------------------------------------------------
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Residues in contact with GLN 788 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
784A LEU 3.0 14.3 + - - +
785A LYS* 4.2 5.2 - - - +
787A GLU* 1.3 76.3 - - - +
789A GLU* 1.3 57.9 + - - +
791A GLN* 3.8 6.9 - - - +
792A HIS* 2.9 28.4 + - - +
1024A HIS* 3.7 29.4 - - + -
1025A THR 5.3 2.9 - - - +
----------------------------------------------------------
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Residues in contact with GLU 789 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
785A LYS 2.9 18.9 + - - +
786A ALA* 3.6 8.3 - - - +
787A GLU 3.2 0.2 - - - -
788A GLN* 1.3 77.5 - - - +
790A ARG* 1.3 57.8 + - - +
792A HIS* 3.2 7.5 + - - +
793A ASN* 2.9 27.9 + - - +
----------------------------------------------------------
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Residues in contact with ARG 790 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
786A ALA 2.9 17.6 + - - +
787A GLU* 4.1 4.3 - - - +
789A GLU* 1.3 73.9 - - - +
791A GLN* 1.3 60.3 + - - +
793A ASN* 3.3 7.2 + - - +
794A TYR* 3.0 28.6 + - - +
1028A TYR* 5.8 0.2 - - - +
60B HIS* 6.0 6.1 - - + -
----------------------------------------------------------
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Residues in contact with GLN 791 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
787A GLU 2.9 17.0 + - - +
788A GLN* 3.9 8.1 - - - +
790A ARG* 1.3 76.3 - - - +
792A HIS* 1.3 60.9 + - - +
794A TYR* 3.7 12.4 + - - +
795A LEU* 3.9 10.2 + - - +
1025A THR 4.6 10.3 - - - +
1026A ASN* 5.1 0.9 - - - -
1027A SER* 4.5 29.0 - - - +
1028A TYR* 5.2 5.6 - - - +
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Residues in contact with HIS 792 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
788A GLN 2.9 18.5 + - - +
789A GLU* 3.5 8.3 - - - +
790A ARG 3.2 0.2 - - - -
791A GLN* 1.3 77.5 - - - +
793A ASN* 1.3 59.4 + - - +
794A TYR 3.5 0.7 + - - -
795A LEU* 3.5 12.8 + - - +
796A LYS* 3.6 13.0 + - - +
276C GLN* 5.8 2.8 - - - +
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Residues in contact with ASN 793 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
789A GLU 2.9 16.9 + - - +
790A ARG* 3.3 6.9 + - - +
792A HIS* 1.3 73.7 - - - +
794A TYR* 1.3 63.4 + - - +
795A LEU 3.4 0.2 - - - -
796A LYS* 4.2 5.1 - - - +
797A ASP* 3.3 25.7 + - + +
60B HIS* 6.4 1.8 - - + -
----------------------------------------------------------
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Residues in contact with TYR 794 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
790A ARG 3.0 16.3 + - - +
791A GLN 4.1 6.3 - - - +
792A HIS 3.3 1.0 - - - -
793A ASN* 1.3 79.0 - - - +
795A LEU* 1.3 60.3 + - - +
798A GLY* 2.9 31.5 + - - +
1027A SER* 5.9 2.2 - - - -
1028A TYR* 4.3 23.8 - - + -
----------------------------------------------------------
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Residues in contact with LEU 795 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
791A GLN 3.9 6.8 + - - +
792A HIS* 3.5 9.0 + - - +
793A ASN 3.4 0.6 - - - -
794A TYR* 1.3 79.7 - - - +
796A LYS* 1.3 62.0 + - - +
797A ASP 3.4 0.7 + - - -
798A GLY* 3.5 8.0 + - - -
1027A SER* 6.3 2.7 - - - -
276C GLN* 5.9 5.4 - - + -
279C HIS 4.7 15.0 - - - +
280C ILE* 4.0 2.8 - - - -
281C ASN* 3.6 21.5 + - - +
----------------------------------------------------------
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Residues in contact with LYS 796 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
792A HIS 3.6 12.6 + - - +
793A ASN* 4.1 3.8 + - - +
794A TYR 3.5 0.2 - - - -
795A LEU* 1.3 79.1 - - - +
797A ASP* 1.3 57.3 + - - +
798A GLY 3.5 0.2 - - - -
276C GLN* 4.5 20.6 - - + +
278C VAL* 6.1 5.4 - - + -
279C HIS 6.3 0.7 - - - +
280C ILE 5.2 6.0 - - - +
281C ASN* 4.4 7.3 - - - +
----------------------------------------------------------
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Residues in contact with ASP 797 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
793A ASN 3.3 19.7 + - - +
794A TYR* 5.2 0.2 - - - -
795A LEU 3.2 0.4 - - - -
796A LYS* 1.3 80.4 - - - +
798A GLY* 1.3 62.1 + - - +
799A PRO 4.6 2.8 - - - +
57B VAL* 5.4 6.2 - - - +
58B VAL 5.9 2.9 - - - +
281C ASN* 4.5 2.5 - - - -
283C ASN* 5.7 0.7 - - - +
----------------------------------------------------------
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Residues in contact with GLY 798 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
794A TYR* 2.9 25.2 + - - +
795A LEU 3.5 5.9 + - - -
796A LYS 3.5 0.6 - - - -
797A ASP* 1.3 84.2 - - - +
799A PRO* 1.3 63.5 - - - +
800A TYR 3.6 1.7 + - - -
281C ASN* 3.7 19.2 - - - +
283C ASN* 4.8 9.0 - - - -
284C PHE* 5.3 3.1 - - - -
----------------------------------------------------------
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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