Contacts of the helix formed by residues 801 - 824 (chain A) in PDB entry 2WK3
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 SER 801 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
799A MET* 3.6 5.8 + - - -
800A GLN* 1.3 77.6 - - - +
802A THR* 1.3 69.1 + - - +
803A SER* 2.8 14.0 + - - -
804A GLU* 3.7 12.8 + - - +
805A ASN* 2.8 33.1 + - - +
844A GLN* 4.2 0.4 - - - +
920A ARG* 5.9 0.9 - - - +
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Residues in contact with THR 802 (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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801A SER* 1.3 76.4 + - - +
803A SER* 1.3 60.6 + - - +
805A ASN* 3.8 0.7 - - - +
806A MET* 3.3 24.1 + - - +
917A ASN* 5.2 5.5 + - - -
920A ARG* 6.0 0.2 - - - +
923A THR* 4.1 20.2 - - + +
924A GLU* 4.3 23.3 + - + +
927A TYR* 3.9 32.9 - - + -
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Residues in contact with SER 803 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
801A SER* 2.8 9.1 + - - -
802A THR* 1.3 74.5 - - - +
804A GLU* 1.3 76.7 + - - +
805A ASN 3.2 1.3 - - - -
806A MET* 3.3 1.9 + - - +
807A PHE* 3.0 38.1 + - - -
927A TYR* 3.3 34.7 - - - -
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Residues in contact with GLU 804 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797A THR* 4.1 9.7 + - - -
798A ASP* 3.9 29.0 - - + +
799A MET 3.7 15.0 - - - +
801A SER* 3.3 8.9 + - - +
803A SER* 1.3 86.7 + - - +
805A ASN* 1.3 61.6 + - - +
807A PHE* 3.8 19.4 - - - +
808A LEU* 3.2 22.5 + - - +
844A GLN* 3.3 20.0 + - - +
939A PHE* 4.0 18.6 - - - -
943A MET* 5.1 5.7 - - - +
950A ARG* 5.1 7.1 + - - -
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Residues in contact with ASN 805 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
800A GLN* 3.3 14.6 - - - +
801A SER 2.8 36.5 + - - +
802A THR 3.8 3.4 - - - +
804A GLU* 1.3 77.4 - - - +
806A MET* 1.3 65.2 + - - +
808A LEU 3.8 0.2 - - - -
809A GLU* 2.8 35.3 + - - +
839A ARG* 3.8 15.5 + - - +
844A GLN* 2.8 27.9 + - - +
920A ARG* 3.5 11.1 + - - -
924A GLU* 2.8 26.3 - - - +
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Residues in contact with MET 806 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
802A THR 3.3 18.3 + - - +
803A SER 3.3 0.9 + - - +
805A ASN* 1.3 80.6 - - - +
807A PHE* 1.3 66.3 + - - +
809A GLU* 4.0 5.3 - - + +
810A LEU* 3.0 25.5 + - - +
889A LEU* 3.6 30.3 - - + -
893A ARG* 3.6 32.5 - - + +
924A GLU* 3.4 39.3 - - + +
925A VAL* 5.0 2.0 - - + +
927A TYR* 3.9 18.4 - - + -
928A LEU* 3.7 19.3 - - + +
931A LEU* 4.3 9.5 - - + +
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Residues in contact with PHE 807 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
803A SER* 3.0 32.5 + - - +
804A GLU* 3.8 20.0 - - - +
806A MET* 1.3 78.5 - - - +
808A LEU* 1.3 62.5 + - - +
810A LEU* 3.8 2.1 - - - +
811A PHE* 3.1 23.2 + - - +
927A TYR* 3.7 23.6 - - - -
931A LEU* 3.9 24.9 - - + -
935A ASP* 4.4 18.6 - - + -
936A ILE* 3.9 16.3 - - + +
939A PHE* 3.6 41.2 - + + -
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Residues in contact with LEU 808 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
797A THR* 4.6 11.2 - - + +
804A GLU 3.2 14.7 + - - +
805A ASN 3.8 2.7 - - - +
807A PHE* 1.3 77.5 - - - +
809A GLU* 1.3 57.5 + - - +
811A PHE* 3.5 3.4 + - + +
812A ALA* 3.0 28.2 + - - +
837A PRO* 4.0 11.7 - - + -
839A ARG* 4.0 9.0 - - - +
844A GLN* 3.2 31.9 - - + +
845A GLY* 3.3 44.4 - - - +
846A LEU* 3.9 21.1 - - + +
939A PHE* 3.9 15.8 - - + -
944A LEU* 6.0 0.7 - - + -
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Residues in contact with GLU 809 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
805A ASN* 2.8 26.3 + - - +
806A MET* 4.0 7.4 - - + +
807A PHE 3.3 0.2 - - - -
808A LEU* 1.3 74.0 - - - +
810A LEU* 1.3 56.0 + - - +
812A ALA* 3.1 6.9 + - - +
813A GLN* 2.8 28.2 + - - +
837A PRO* 4.3 15.0 - - + -
839A ARG* 2.7 36.5 + - - +
889A LEU* 3.9 21.5 - - + +
893A ARG* 2.7 44.6 + - - +
924A GLU* 4.5 1.9 - - - +
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Residues in contact with LEU 810 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
806A MET 3.0 17.6 + - - +
807A PHE 3.8 2.5 - - - +
809A GLU* 1.3 72.4 - - - +
811A PHE* 1.3 68.2 + - - +
813A GLN* 3.2 6.4 + - + -
814A ILE* 3.0 26.9 + - + +
882A PHE* 3.6 24.7 - - + +
885A HIS* 4.1 37.2 - - + +
886A ILE* 4.2 12.6 - - + +
889A LEU* 4.1 5.5 - - + +
928A LEU* 3.6 18.6 - - + -
931A LEU* 4.7 6.1 - - + -
936A ILE* 3.6 29.8 - - + -
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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
----------------------------------------------------------
807A PHE 3.1 14.9 + - - +
808A LEU* 3.8 4.5 - - + +
810A LEU* 1.3 81.4 - - - +
812A ALA* 1.3 62.5 + - - +
814A ILE* 3.2 6.9 + - - +
815A ILE* 3.1 61.9 + - + +
846A LEU* 4.0 14.1 - - + -
867A LEU* 4.5 9.6 - - + -
870A MET* 4.8 4.9 - - + -
874A ILE* 4.0 23.1 - - + -
936A ILE* 4.0 21.3 - - + +
939A PHE* 4.3 12.1 - + + -
940A TYR* 3.8 31.2 - + + -
944A LEU* 3.6 31.4 - - + -
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Residues in contact with ALA 812 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
808A LEU 3.0 18.7 + - - +
809A GLU 3.1 5.1 + - - +
811A PHE* 1.3 75.0 - - - +
813A GLN* 1.3 64.5 + - - +
815A ILE* 3.2 11.4 + - - +
816A SER* 2.9 27.1 + - - -
835A SER* 5.3 0.3 + - - -
836A GLY* 4.2 12.1 - - - -
837A PRO* 4.1 28.9 - - + -
846A LEU* 4.8 5.2 - - + -
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Residues in contact with GLN 813 (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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132A SER* 3.1 31.6 + - - +
809A GLU 2.8 13.6 + - - +
810A LEU* 3.2 10.1 + - + +
812A ALA* 1.3 80.1 - - - +
814A ILE* 1.3 63.0 + - - +
815A ILE 3.3 0.3 + - - -
816A SER* 3.4 16.0 + - - -
817A GLU 4.8 0.7 + - - -
885A HIS* 2.9 54.8 + - + +
888A ALA* 3.8 10.8 - - - +
889A LEU* 4.2 14.5 + - + -
892A ARG* 3.2 31.3 + - - +
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Residues in contact with ILE 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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810A LEU* 3.0 27.2 + - + +
811A PHE* 3.7 5.4 - - - +
812A ALA 3.2 0.2 - - - -
813A GLN* 1.3 77.1 - - - +
815A ILE* 1.3 62.8 + - + +
818A PRO* 3.5 18.5 - - - +
870A MET* 3.7 18.1 - - + +
874A ILE* 4.1 30.1 - - + -
877A MET* 4.1 15.3 - - + -
882A PHE* 4.3 28.3 - - + -
885A HIS* 3.8 36.3 + - + +
936A ILE* 4.6 9.2 - - + -
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Residues in contact with ILE 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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811A PHE* 3.1 54.4 + - + +
812A ALA* 3.2 7.4 + - - +
814A ILE* 1.3 86.2 - - + +
816A SER* 1.3 66.1 + - - +
817A GLU 3.5 0.9 - - - -
818A PRO* 3.6 4.0 - - - -
819A ALA* 2.8 25.3 + - - +
835A SER* 4.3 11.4 - - - +
846A LEU* 4.0 14.6 - - + -
848A PHE* 4.0 27.6 - - + -
866A PHE* 4.2 4.9 - - + -
867A LEU* 4.9 0.9 - - + -
870A MET* 3.5 35.4 - - + -
874A ILE* 5.2 0.2 - - + -
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Residues in contact with SER 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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132A SER* 4.8 5.4 - - - -
812A ALA 2.9 17.0 + - - -
813A GLN* 3.6 13.7 - - - -
814A ILE 3.3 1.8 - - - -
815A ILE* 1.3 80.7 - - - +
817A GLU* 1.3 62.6 + - - +
819A ALA* 3.6 3.6 + - - +
820A PHE* 3.5 16.3 + - - +
835A SER* 4.3 15.8 + - - -
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Residues in contact with GLU 817 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ASN* 3.4 23.1 - - - +
128A SER* 3.4 22.8 + - - +
129A GLN* 3.8 27.5 - - + +
132A SER* 3.6 32.9 + - - +
813A GLN 4.8 0.6 + - - -
816A SER* 1.3 76.5 - - - +
818A PRO* 1.3 89.6 - - + +
820A PHE* 3.0 10.3 + - + +
821A ASN* 2.7 33.6 + - - +
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Residues in contact with PRO 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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132A SER* 5.7 0.2 - - - +
814A ILE 3.5 24.7 - - - +
815A ILE 3.5 2.9 - - - +
817A GLU* 1.3 106.5 - - + +
819A ALA* 1.3 63.1 + - - +
821A ASN* 4.2 4.5 - - + -
822A THR* 2.8 32.0 + - - +
866A PHE* 3.6 4.9 - - + -
870A MET* 3.7 30.1 - - + -
885A HIS* 6.1 1.6 - - + -
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Residues in contact with ALA 819 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
815A ILE* 2.8 23.7 + - + +
816A SER 3.8 2.9 - - - +
817A GLU 3.2 0.2 - - - -
818A PRO* 1.3 72.7 - - - +
820A PHE* 1.3 57.1 + - - +
823A LEU* 2.9 46.5 + - + +
833A VAL* 4.6 4.7 - - + -
835A SER* 3.8 25.6 - - - +
848A PHE* 4.5 0.4 - - + -
866A PHE* 3.3 25.4 - - + -
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Residues in contact with PHE 820 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A SER* 5.7 7.0 - - - -
816A SER 3.5 9.4 + - - +
817A GLU* 3.0 12.4 + - + +
819A ALA* 1.3 81.0 - - - +
821A ASN* 1.3 65.0 + - - +
824A ARG* 3.0 72.1 + - + +
825A THR* 3.2 24.0 + - - -
831A TYR 4.9 2.9 - - - -
833A VAL* 4.1 27.1 - - + +
20C PHE* 4.3 23.8 - + - -
21C ALA* 4.5 16.4 - - + -
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Residues in contact with ASN 821 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A GLU* 4.6 5.5 + - - +
125A ASN* 3.4 37.0 - - - +
128A SER* 5.5 0.6 + - - +
817A GLU* 2.7 30.6 + - - +
818A PRO* 3.8 6.7 - - + +
820A PHE* 1.3 76.5 - - + +
822A THR* 1.3 53.4 + - - +
825A THR* 3.0 30.1 + - - +
826A LYS* 2.7 55.6 + - - +
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Residues in contact with THR 822 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
818A PRO* 2.8 21.1 + - - +
819A ALA 4.0 0.2 - - - -
821A ASN* 1.3 78.2 + - - +
823A LEU* 1.3 67.3 + - + +
824A ARG 3.2 0.2 - - - -
826A LYS* 3.6 23.4 + - - +
827A GLU* 2.9 52.7 + - + +
866A PHE* 3.7 32.5 - - + -
869A THR* 5.9 5.3 - - + +
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Residues in contact with LEU 823 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
819A ALA* 2.9 28.4 + - + +
822A THR* 1.3 83.9 - - + +
824A ARG* 1.3 58.1 + - - +
827A GLU* 4.4 5.2 - - - +
828A GLN 3.5 1.1 + - - -
829A LEU* 2.9 53.5 + - + +
833A VAL* 3.9 19.9 - - + +
848A PHE* 4.4 9.9 - - + -
850A ILE* 4.6 7.4 - - + -
862A ARG* 3.8 28.0 - - + +
863A VAL* 4.4 14.8 - - + +
866A PHE* 3.9 29.2 - - + -
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Residues in contact with ARG 824 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A HIS* 3.9 4.2 - - - -
182A GLU* 3.1 25.4 + - - -
185A ALA* 4.0 11.9 - - - +
820A PHE* 3.0 45.9 + - + +
823A LEU* 1.3 78.7 - - - +
825A THR* 1.3 63.5 + - - +
826A LYS 3.4 0.9 - - - -
828A GLN* 2.5 44.5 + - - +
829A LEU 4.3 0.4 - - - +
830A GLY 3.5 19.1 - - - +
831A TYR* 3.2 35.9 + - - +
833A VAL* 3.8 18.8 - - + -
20C PHE* 2.9 46.7 + - - -
21C ALA* 4.3 2.6 - - - +
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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