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Zinc in PDB 3ptq: The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside

Enzymatic activity of The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside

All present enzymatic activity of The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside:
3.2.1.21;

Protein crystallography data

The structure of The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside, PDB code: 3ptq was solved by S.Sansenya, R.Opassiri, B.Kuaprasert, C.J.Chen, J.R.Ketudat Cairns, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.45
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 114.112, 114.112, 184.541, 90.00, 90.00, 90.00
R / Rfree (%) 20.9 / 25.1

Other elements in 3ptq:

The structure of The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside also contains other interesting chemical elements:

Fluorine (F) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside (pdb code 3ptq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside, PDB code: 3ptq:

Zinc binding site 1 out of 1 in 3ptq

Go back to Zinc Binding Sites List in 3ptq
Zinc binding site 1 out of 1 in the The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12 with Dinitrophenyl 2-Deoxy-2-Fluoro-Beta-D-Glucopyranoside within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn487

b:22.8
occ:1.00
 OD2 A:ASP66 1.9 20.8 1.0
ND1 A:HIS69 1.9 22.5 1.0
NE2 B:HIS69 2.0 22.9 1.0
OE1 B:GLU36 2.0 25.2 1.0
CG A:ASP66 2.7 22.4 1.0
CG A:HIS69 2.8 22.2 1.0
OD1 A:ASP66 2.8 23.1 1.0
CD B:GLU36 2.8 25.2 1.0
CE1 B:HIS69 2.9 23.2 1.0
CE1 A:HIS69 3.0 23.7 1.0
CD2 B:HIS69 3.0 22.7 1.0
CB A:HIS69 3.0 22.2 1.0
OE2 B:GLU36 3.0 26.1 1.0
O A:HOH498 3.6 19.5 1.0
CD2 A:HIS69 4.0 22.2 1.0
ND1 B:HIS69 4.0 23.3 1.0
NE2 A:HIS69 4.1 22.9 1.0
CG B:HIS69 4.1 22.9 1.0
CB A:ASP66 4.2 22.4 1.0
CG B:GLU36 4.2 24.8 1.0
CE2 B:TYR68 4.5 21.4 1.0
CA A:HIS69 4.5 22.1 1.0
CD2 B:TYR68 4.6 21.6 1.0
O A:ASP66 4.7 22.9 1.0
CB B:GLU36 4.8 24.5 1.0
O B:HOH542 4.9 23.6 1.0
CG A:LEU70 4.9 22.6 1.0
N A:HIS69 4.9 22.0 1.0
O A:HOH569 5.0 23.3 1.0

Reference:

S.Sansenya, R.Opassiri, B.Kuaprasert, C.J.Chen, J.R.Ketudat Cairns. The Crystal Structure of Rice (Oryza Sativa L.) OS4BGLU12, An Oligosaccharide and Tuberonic Acid Glucoside-Hydrolyzing Beta-Glucosidase with Significant Thioglucohydrolase Activity Arch.Biochem.Biophys. V. 510 62 2011.
ISSN: ISSN 0003-9861
PubMed: 21521631
DOI: 10.1016/J.ABB.2011.04.005
Page generated: Wed Dec 16 04:43:59 2020

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