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Zinc in PDB 2g3f: Crystal Structure of Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue

Enzymatic activity of Crystal Structure of Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue

All present enzymatic activity of Crystal Structure of Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue:
3.5.2.7;

Protein crystallography data

The structure of Crystal Structure of Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue, PDB code: 2g3f was solved by Y.Yu, Y.H.Liang, X.D.Su, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 19.91 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 57.530, 106.080, 66.310, 90.00, 90.20, 90.00
R / Rfree (%) 18.5 / 21.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue (pdb code 2g3f). 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 Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue, PDB code: 2g3f:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 2g3f

Go back to Zinc Binding Sites List in 2g3f
Zinc binding site 1 out of 2 in the Crystal Structure of Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue


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 Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1601

b:13.0
occ:1.00
O A:HOH1739 2.1 12.6 1.0
NE2 A:HIS82 2.1 11.8 1.0
NE2 A:HIS80 2.2 7.5 1.0
NE2 A:HIS249 2.3 9.6 1.0
OD1 A:ASP324 2.4 10.0 1.0
CD2 A:HIS249 3.1 8.4 1.0
CE1 A:HIS82 3.1 8.3 1.0
CE1 A:HIS80 3.1 7.7 1.0
CD2 A:HIS82 3.1 9.1 1.0
CD2 A:HIS80 3.2 7.6 1.0
CE1 A:HIS249 3.3 9.9 1.0
CG A:ASP324 3.4 10.2 1.0
OD2 A:ASP324 3.7 9.5 1.0
NE2 A:HIS272 4.1 17.6 1.0
ND1 A:HIS82 4.2 9.4 1.0
CG A:HIS249 4.3 8.7 1.0
ND1 A:HIS80 4.3 8.3 1.0
CG A:HIS82 4.3 9.3 1.0
CG A:HIS80 4.3 8.3 1.0
ND1 A:HIS249 4.4 9.3 1.0
CD1 A:LEU294 4.6 13.2 1.0
N3 A:IZC1500 4.6 19.3 1.0
CE A:LYS149 4.6 11.8 1.0
CB A:ASP324 4.6 9.8 1.0
CD A:LYS149 4.7 12.2 1.0
C4 A:IZC1500 4.7 18.8 1.0
C2 A:IZC1500 4.8 20.7 1.0
CD2 A:HIS272 4.8 15.2 1.0
C5 A:IZC1500 4.9 18.6 1.0
CE1 A:HIS272 4.9 17.7 1.0
N1 A:IZC1500 5.0 20.5 1.0
ND2 A:ASN326 5.0 12.2 1.0

Zinc binding site 2 out of 2 in 2g3f

Go back to Zinc Binding Sites List in 2g3f
Zinc binding site 2 out of 2 in the Crystal Structure of Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue


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 Imidazolonepropionase Complexed with Imidazole-4- Acetic Acid Sodium Salt, A Substrate Homologue within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2601

b:13.0
occ:1.00
O B:HOH2717 2.1 16.6 1.0
NE2 B:HIS80 2.2 5.5 1.0
NE2 B:HIS82 2.2 11.1 1.0
NE2 B:HIS249 2.2 3.4 1.0
OD1 B:ASP324 2.4 8.1 1.0
CE1 B:HIS80 3.1 4.2 1.0
CD2 B:HIS80 3.1 3.5 1.0
CD2 B:HIS249 3.1 5.1 1.0
CD2 B:HIS82 3.2 10.4 1.0
CE1 B:HIS82 3.2 10.4 1.0
CE1 B:HIS249 3.2 6.2 1.0
CG B:ASP324 3.3 7.5 1.0
OD2 B:ASP324 3.6 9.0 1.0
NE2 B:HIS272 3.8 18.9 1.0
ND1 B:HIS80 4.3 4.5 1.0
ND1 B:HIS249 4.3 5.3 1.0
CG B:HIS249 4.3 6.5 1.0
ND1 B:HIS82 4.3 11.1 1.0
CG B:HIS80 4.3 4.8 1.0
CG B:HIS82 4.3 11.1 1.0
CD1 B:LEU294 4.6 7.8 1.0
CE1 B:HIS272 4.6 17.6 1.0
CE B:LYS149 4.6 7.4 1.0
CB B:ASP324 4.6 8.2 1.0
C4 B:IZC2500 4.6 15.7 1.0
CD B:LYS149 4.7 9.3 1.0
N3 B:IZC2500 4.7 14.6 1.0
C5 B:IZC2500 4.8 15.1 1.0
CD2 B:HIS272 4.8 17.2 1.0
C2 B:IZC2500 4.9 17.1 1.0
N1 B:IZC2500 4.9 14.2 1.0
ND2 B:ASN326 5.0 7.9 1.0
C6 B:IZC2500 5.0 12.9 1.0

Reference:

Y.Yu, Y.H.Liang, E.Brostromer, J.M.Quan, S.Panjikar, Y.H.Dong, X.D.Su. A Catalytic Mechanism Revealed By the Crystal Structures of the Imidazolonepropionase From Bacillus Subtilis J.Biol.Chem. V. 281 36929 2006.
ISSN: ISSN 0021-9258
PubMed: 16990261
DOI: 10.1074/JBC.M607703200
Page generated: Wed Dec 16 03:28:54 2020

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