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Zinc in PDB 1yw4: Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22.

Protein crystallography data

The structure of Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22., PDB code: 1yw4 was solved by F.Forouhar, M.Abashidze, K.Conover, T.B.Acton, G.T.Montelione, L.Tong, J.F.Hunt, Northeast Structural Genomics Consortium (Nesg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 29.95 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 62.950, 39.435, 131.585, 90.00, 94.74, 90.00
R / Rfree (%) 22.1 / 26.2

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22. (pdb code 1yw4). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22., PDB code: 1yw4:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 1yw4

Go back to Zinc Binding Sites List in 1yw4
Zinc binding site 1 out of 2 in the Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:28.9
occ:1.00
ND1 A:HIS56 2.3 14.7 1.0
OE1 A:GLU59 2.3 11.3 1.0
O A:HOH666 2.3 15.5 1.0
ND1 A:HIS149 2.3 13.2 1.0
OE2 A:GLU59 2.4 15.0 1.0
CD A:GLU59 2.6 13.3 1.0
CE1 A:HIS56 3.1 14.4 1.0
CG A:HIS149 3.3 11.6 1.0
CE1 A:HIS149 3.3 12.2 1.0
CG A:HIS56 3.4 13.1 1.0
CB A:HIS149 3.5 10.5 1.0
O A:HOH665 3.8 29.3 1.0
O A:THR150 3.8 16.6 1.0
CB A:HIS56 3.9 11.5 1.0
O A:HOH509 3.9 11.6 1.0
CG A:GLU59 4.1 13.8 1.0
OE2 A:GLU214 4.1 22.2 1.0
NH1 A:ARG99 4.3 26.5 1.0
NE2 A:HIS56 4.3 17.1 1.0
CD2 A:HIS149 4.4 10.7 1.0
NE2 A:HIS149 4.4 14.3 1.0
CA A:HIS149 4.5 11.8 1.0
CD2 A:HIS56 4.5 14.0 1.0
O A:HOH554 4.5 22.5 1.0
N A:THR150 4.6 14.0 1.0
NH2 A:ARG99 4.7 27.2 1.0
O A:HOH663 4.8 28.1 1.0
CZ A:ARG99 4.8 23.8 1.0
C A:THR150 5.0 16.6 1.0

Zinc binding site 2 out of 2 in 1yw4

Go back to Zinc Binding Sites List in 1yw4
Zinc binding site 2 out of 2 in the Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn502

b:40.0
occ:1.00
OE1 B:GLU59 2.3 17.1 1.0
O B:HOH603 2.3 20.3 1.0
ND1 B:HIS149 2.3 13.3 1.0
ND1 B:HIS56 2.3 13.4 1.0
OE2 B:GLU59 2.5 13.0 1.0
CD B:GLU59 2.7 16.7 1.0
CE1 B:HIS56 3.0 16.4 1.0
CG B:HIS149 3.2 11.2 1.0
CE1 B:HIS149 3.3 13.5 1.0
CB B:HIS149 3.4 12.2 1.0
CG B:HIS56 3.5 12.9 1.0
O B:THR150 3.8 15.8 1.0
CB B:HIS56 4.0 15.3 1.0
O B:HOH514 4.1 11.9 1.0
OE2 B:GLU214 4.1 18.8 1.0
CG B:GLU59 4.2 15.7 1.0
NE2 B:HIS56 4.3 13.5 1.0
O B:HOH590 4.3 30.3 1.0
CD2 B:HIS149 4.4 11.8 1.0
NE2 B:HIS149 4.4 14.6 1.0
CA B:HIS149 4.4 11.3 1.0
NH2 B:ARG99 4.5 36.6 1.0
CD2 B:HIS56 4.5 16.0 1.0
O B:HOH631 4.6 30.6 1.0
N B:THR150 4.7 12.5 1.0
O B:HOH604 4.7 20.9 1.0
CD B:GLU214 5.0 17.8 1.0

Reference:

F.Forouhar, M.Abashidze, K.Conover, T.B.Acton, G.T.Montelione, L.Tong, J.F.Hunt. Crystal Structure of the Succinylglutamate Desuccinylase From Chromobacterium Violaceum, Northeast Structural Genomics Target CVR22. To Be Published.
Page generated: Wed Dec 16 03:14:58 2020

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