Contacts of the helix formed by residues 801 - 826 (chain A) in PDB entry 2IUK
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 801 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174A THR* 4.2 10.0 + - - +
657A LEU* 4.4 7.6 - - - +
658A TYR* 2.9 39.1 + - - +
799A THR* 3.0 14.6 + - - +
800A THR* 1.3 77.7 + - - +
802A LYS* 1.3 67.0 + - - +
803A LYS* 4.2 5.2 - - - +
804A ALA* 3.6 10.8 + - + +
805A LEU* 3.0 26.3 + - - +
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Residues in contact with LYS 802 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800A THR 3.3 8.5 + - - +
801A ASP* 1.3 69.5 - - - +
803A LYS* 1.3 66.3 + - + +
805A LEU* 3.4 14.9 + - + +
806A GLU* 2.9 51.9 + - - +
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Residues in contact with LYS 803 (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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657A LEU* 4.0 27.7 - - + +
801A ASP* 3.1 5.5 - - - +
802A LYS* 1.3 85.1 - - + +
804A ALA* 1.3 60.5 + - - +
806A GLU* 3.8 14.7 - - + +
807A ALA* 3.0 28.6 + - - +
810A ARG* 5.4 0.5 + - - -
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Residues in contact with ALA 804 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
650A TRP* 3.9 6.6 - - - -
654A TYR* 4.0 15.3 - - + -
657A LEU* 3.6 15.9 - - + +
658A TYR* 3.5 24.5 - - - +
798A TRP* 4.2 2.9 - - + -
799A THR* 3.7 13.0 - - + -
801A ASP* 3.1 13.1 + - + +
803A LYS* 1.3 76.4 - - - +
805A LEU* 1.3 57.4 + - - +
807A ALA* 3.5 3.4 + - - -
808A PHE* 3.1 27.5 + - - +
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Residues in contact with LEU 805 (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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796A PRO 3.5 25.6 - - - +
797A ASN* 5.7 0.7 - - - -
798A TRP* 3.9 13.9 - - + +
799A THR* 3.4 35.7 - - + +
800A THR 5.1 1.3 - - - -
801A ASP 3.0 16.3 + - - +
802A LYS* 3.6 14.8 - - + +
804A ALA* 1.3 75.2 - - - +
806A GLU* 1.3 59.2 + - + +
808A PHE* 3.3 10.3 + - + +
809A LYS* 3.1 27.2 + - - +
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Residues in contact with GLU 806 (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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802A LYS* 2.9 43.4 + - - +
803A LYS* 3.8 16.9 - - - +
805A LEU* 1.3 77.4 - - + +
807A ALA* 1.3 61.2 + - - +
808A PHE 3.2 0.2 + - - -
809A LYS* 3.3 8.5 + - - +
810A ARG* 3.1 34.7 + - - +
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Residues in contact with ALA 807 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
650A TRP* 3.3 22.9 - - + +
653A GLU* 4.0 20.2 - - + +
654A TYR* 5.4 0.4 - - - +
657A LEU* 5.7 4.3 - - + -
803A LYS 3.0 18.8 + - - +
804A ALA* 4.1 4.5 - - - +
805A LEU 3.4 0.2 - - - -
806A GLU* 1.3 75.5 - - - +
808A PHE* 1.3 58.9 + - - +
810A ARG* 3.4 34.9 - - - +
811A PHE* 3.4 14.0 + - - +
814A LYS* 5.3 0.5 + - - -
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Residues in contact with PHE 808 (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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650A TRP* 3.6 25.6 - + + -
790A LEU 4.4 2.7 - - - -
791A GLY* 3.1 44.2 - - - +
792A GLU* 3.5 9.9 - - - -
793A ARG* 3.4 40.8 - - + -
798A TRP* 3.8 24.0 - + + -
804A ALA 3.1 16.2 + - - +
805A LEU* 3.5 7.4 - - - +
806A GLU 3.1 0.4 - - - -
807A ALA* 1.3 77.4 - - - +
809A LYS* 1.3 59.0 + - - +
810A ARG 3.3 0.2 - - - -
811A PHE* 3.1 16.4 + + - +
812A GLY* 2.9 24.1 + - - -
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Residues in contact with LYS 809 (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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805A LEU 3.1 15.6 + - - +
806A GLU* 3.3 7.4 + - - +
808A PHE* 1.3 74.4 - - - +
810A ARG* 1.3 61.6 + - + +
812A GLY* 3.9 2.6 - - - +
813A SER* 2.8 45.8 + - - +
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Residues in contact with ARG 810 (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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653A GLU* 3.0 36.2 + - - +
657A LEU* 6.4 0.2 - - - +
803A LYS 5.4 0.2 + - - -
806A GLU* 3.1 22.7 + - - +
807A ALA* 3.4 31.6 - - - +
808A PHE 3.3 0.2 - - - -
809A LYS* 1.3 76.2 - - + +
811A PHE* 1.4 53.9 + - - +
813A SER* 3.4 7.0 + - - -
814A LYS* 2.9 42.1 + - - +
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Residues in contact with PHE 811 (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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557A HIS* 6.0 1.3 - + - -
646A ALA* 3.4 35.0 - - + -
647A ILE* 3.8 8.7 - - + -
650A TRP* 3.7 36.1 - + + -
709A VAL* 5.8 0.4 - - + -
790A LEU* 3.9 38.6 - - + -
791A GLY* 4.2 2.2 - - - -
807A ALA 3.4 12.3 + - - +
808A PHE* 3.1 30.2 + + - +
810A ARG* 1.4 75.8 - - - +
812A GLY* 1.3 64.9 + - - +
814A LYS* 3.2 14.6 + - - +
815A LEU* 3.1 47.2 + - + +
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Residues in contact with GLY 812 (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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791A GLY* 4.2 22.9 - - - -
808A PHE 2.9 14.5 + - - -
809A LYS* 3.6 3.8 + - - -
810A ARG 3.5 0.2 - - - -
811A PHE* 1.3 75.4 - - - +
813A SER* 1.4 60.3 + - - +
815A LEU* 3.2 8.1 + - - +
816A THR* 3.2 24.0 + - - -
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Residues in contact with SER 813 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
809A LYS* 2.8 46.2 + - - -
810A ARG* 3.6 6.9 - - - -
812A GLY* 1.4 74.9 - - - +
814A LYS* 1.3 59.6 + - - +
816A THR* 3.7 8.9 + - - -
817A GLY* 3.5 17.0 + - - -
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Residues in contact with LYS 814 (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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645A ASP 5.6 0.2 - - - -
646A ALA* 3.5 44.4 + - + +
649A THR* 4.0 25.0 - - + +
650A TRP* 4.3 4.6 - - - +
653A GLU* 5.2 3.4 + - - -
807A ALA 5.3 1.0 + - - -
810A ARG* 2.9 19.8 + - - +
811A PHE* 3.5 29.8 - - - +
813A SER* 1.3 76.0 - - - +
815A LEU* 1.4 58.5 + - - +
817A GLY* 3.7 3.5 + - - -
818A ILE* 3.1 28.5 + - + +
821A LYS* 5.4 0.5 + - - -
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Residues in contact with LEU 815 (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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643A ILE* 4.9 4.3 - - + -
646A ALA* 3.7 28.0 - - + -
790A LEU* 4.2 13.0 - - + -
791A GLY* 3.6 32.1 - - - +
811A PHE* 3.1 40.0 + - + +
812A GLY* 3.2 5.8 + - - +
814A LYS* 1.4 72.0 - - - +
816A THR* 1.3 62.7 + - - +
817A GLY 3.2 1.3 - - - -
818A ILE* 3.2 20.9 + - + +
819A GLU* 3.2 5.6 + - - +
847A ARG* 3.2 43.8 - - + +
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Residues in contact with THR 816 (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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812A GLY 3.2 15.8 + - - -
813A SER* 3.7 9.3 + - - -
815A LEU* 1.3 73.2 - - - +
817A GLY* 1.3 61.0 + - - +
819A GLU* 3.4 24.7 + - - +
820A GLY* 3.3 16.6 + - - -
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Residues in contact with GLY 817 (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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813A SER 3.5 10.4 + - - -
814A LYS* 3.7 6.0 + - - -
815A LEU 3.2 0.8 - - - -
816A THR* 1.3 78.4 - - - +
818A ILE* 1.3 55.7 + - - +
820A GLY* 3.1 16.4 + - - -
821A LYS* 3.2 23.1 + - - +
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Residues in contact with ILE 818 (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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642A GLU* 3.3 48.5 - - + +
643A ILE* 3.7 12.3 - - + +
646A ALA* 4.0 4.7 - - + -
814A LYS* 3.1 21.3 - - + +
815A LEU* 3.2 24.4 + - + +
817A GLY* 1.3 70.5 - - - +
819A GLU* 1.3 66.2 + - - +
820A GLY 3.1 1.3 - - - -
821A LYS* 3.1 21.8 + - - +
822A ILE* 2.9 27.8 + - + +
847A ARG* 3.1 25.4 - - - +
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Residues in contact with GLU 819 (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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815A LEU 3.2 6.5 + - - +
816A THR* 3.4 28.2 + - + +
818A ILE* 1.3 72.7 - - - +
820A GLY* 1.3 54.9 + - - +
822A ILE* 2.8 23.9 + - - +
823A ASN* 2.9 21.9 + - - +
846A HIS* 3.4 35.1 + - + +
847A ARG* 3.0 36.9 - - - +
848A SER* 2.8 38.4 + - - -
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Residues in contact with GLY 820 (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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816A THR 3.3 6.1 + - - -
817A GLY 3.1 10.9 + - - -
819A GLU* 1.3 80.1 - - - +
821A LYS* 1.3 56.0 + - - +
823A ASN* 3.8 9.0 + - - +
824A ALA* 3.4 21.8 + - - +
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Residues in contact with LYS 821 (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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642A GLU* 3.7 25.6 + - - +
814A LYS 5.4 0.2 + - - -
817A GLY* 3.5 12.4 + - - +
818A ILE* 3.1 29.8 + - - +
820A GLY* 1.3 73.7 - - - +
822A ILE* 1.3 62.9 + - - +
824A ALA* 4.0 8.1 - - - +
825A ARG* 3.1 41.2 + - + +
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Residues in contact with ILE 822 (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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639A ASP* 4.8 2.9 - - - -
642A GLU* 4.6 0.2 - - - +
818A ILE* 2.9 29.5 + - + +
819A GLU* 2.8 9.6 + - - +
821A LYS* 1.3 76.9 - - - +
823A ASN* 1.3 68.1 + - - +
824A ALA 3.2 0.3 + - - -
825A ARG* 3.2 15.4 + - - +
826A ASN* 3.0 35.6 + - - +
834A ARG* 3.3 22.5 + - - +
842A TYR 3.8 0.2 - - - +
843A THR* 4.8 2.9 - - + -
845A LEU* 3.3 43.3 - - + +
846A HIS* 4.3 7.0 - - + +
847A ARG* 3.3 25.4 - - - +
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Residues in contact with ASN 823 (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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819A GLU* 2.9 20.4 + - - +
820A GLY* 4.0 7.6 - - - +
822A ILE* 1.3 77.8 - - - +
824A ALA* 1.3 55.5 + - - +
826A ASN* 3.7 12.6 + - - +
827A SER* 3.1 28.1 + - - -
843A THR* 4.7 6.9 - - - +
846A HIS* 3.7 27.8 + - - -
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Residues in contact with ALA 824 (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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820A GLY 3.4 14.6 + - - +
821A LYS* 4.0 5.1 - - - +
822A ILE 3.3 1.0 - - - -
823A ASN* 1.3 75.9 - - - +
825A ARG* 1.3 60.5 + - + +
826A ASN 3.2 1.6 - - - -
827A SER* 3.2 8.2 + - - -
828A ASP* 2.9 28.1 + - - +
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Residues in contact with ARG 825 (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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638A VAL* 3.5 28.7 + - - +
642A GLU* 2.8 40.0 + - - -
821A LYS* 3.1 36.3 + - + +
822A ILE* 3.2 23.0 + - - +
824A ALA* 1.3 76.7 - - + +
826A ASN* 1.3 56.6 + - - +
827A SER 3.3 0.2 - - - -
828A ASP* 3.4 31.1 - - - +
831A LEU* 3.6 19.0 - - + +
834A ARG* 3.2 45.4 - - - +
845A LEU* 4.2 1.8 - - - +
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Residues in contact with ASN 826 (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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822A ILE* 3.0 25.9 + - - +
823A ASN* 3.7 10.8 + - - +
825A ARG* 1.3 76.5 - - - +
827A SER* 1.4 57.2 + - - +
828A ASP 3.4 2.5 - - - +
834A ARG* 2.8 34.9 + - - +
835A THR* 4.2 16.3 - - - +
841A PRO* 3.8 18.7 - - + +
842A TYR 3.1 28.7 + - - +
843A THR* 3.3 21.4 - - - +
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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