Atomistry » Zinc » PDB 3su5-3t4y » 3t00
Atomistry »
  Zinc »
    PDB 3su5-3t4y »
      3t00 »

Zinc in PDB 3t00: Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate

Enzymatic activity of Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate

All present enzymatic activity of Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate:
3.6.1.9;

Protein crystallography data

The structure of Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate, PDB code: 3t00 was solved by V.Agarwal, S.K.Nair, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.80
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 111.123, 111.123, 72.441, 90.00, 90.00, 90.00
R / Rfree (%) 20.5 / 24.1

Other elements in 3t00:

The structure of Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate also contains other interesting chemical elements:

Nickel (Ni) 1 atom
Vanadium (V) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate (pdb code 3t00). 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 Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate, PDB code: 3t00:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3t00

Go back to Zinc Binding Sites List in 3t00
Zinc binding site 1 out of 2 in the Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate


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 Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:34.0
occ:1.00
O4 A:VO4503 1.8 32.9 1.0
OD1 A:ASP29 2.0 24.6 1.0
NE2 A:HIS251 2.2 18.6 1.0
OD2 A:ASP250 2.3 17.6 1.0
OG1 A:THR68 2.3 21.2 1.0
CG A:ASP29 2.7 20.7 1.0
OD2 A:ASP29 2.9 23.6 1.0
CD2 A:HIS251 3.1 18.1 1.0
CE1 A:HIS251 3.1 17.5 1.0
CG A:ASP250 3.1 17.1 1.0
CB A:THR68 3.2 20.7 1.0
V A:VO4503 3.3 33.4 1.0
OD1 A:ASP250 3.4 17.4 1.0
CG2 A:THR68 3.5 20.4 1.0
O A:HOH465 3.6 29.4 1.0
CA A:THR68 3.6 20.2 1.0
OD2 A:ASP211 3.8 24.1 1.0
N A:THR68 4.0 19.9 1.0
CG A:ASP211 4.1 21.4 1.0
CB A:ASP29 4.1 18.0 1.0
O1 A:VO4503 4.1 32.2 1.0
ND1 A:HIS251 4.2 18.6 1.0
CG A:HIS251 4.2 17.6 1.0
O3 A:VO4503 4.2 31.3 1.0
ZN A:ZN502 4.3 30.9 1.0
N A:GLY30 4.4 17.3 1.0
CB A:ASP250 4.4 16.4 1.0
OD1 A:ASP211 4.5 21.8 1.0
CA A:ASP29 4.5 17.4 1.0
CE1 A:HIS377 4.5 18.9 1.0
CB A:ASP211 4.6 20.8 1.0
O2 A:VO4503 4.7 29.3 1.0
NE2 A:HIS377 4.7 19.6 1.0
C A:ASP29 4.8 17.5 1.0
C A:PHE67 4.8 20.3 1.0
C A:THR68 4.9 20.6 1.0

Zinc binding site 2 out of 2 in 3t00

Go back to Zinc Binding Sites List in 3t00
Zinc binding site 2 out of 2 in the Crystal Structure of Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate


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 Phosphonoacetate Hydrolase From Sinorhizobium Meliloti 1021 in Complex with Vanadate within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn502

b:30.9
occ:1.00
OD2 A:ASP211 1.8 24.1 1.0
O2 A:VO4503 2.0 29.3 1.0
NE2 A:HIS377 2.1 19.6 1.0
NE2 A:HIS215 2.1 21.9 1.0
O4 A:VO4503 2.6 32.9 1.0
CG A:ASP211 2.6 21.4 1.0
OD1 A:ASP211 2.8 21.8 1.0
CE1 A:HIS377 3.0 18.9 1.0
CD2 A:HIS215 3.0 22.7 1.0
V A:VO4503 3.0 33.4 1.0
CD2 A:HIS377 3.1 20.2 1.0
CE1 A:HIS215 3.2 21.9 1.0
CE1 A:HIS251 3.9 17.5 1.0
CB A:ASP211 4.1 20.8 1.0
ND1 A:HIS377 4.1 20.1 1.0
NE2 A:HIS251 4.1 18.6 1.0
CG A:HIS215 4.2 21.8 1.0
O3 A:VO4503 4.2 31.3 1.0
CG A:HIS377 4.2 20.9 1.0
ND1 A:HIS215 4.2 22.3 1.0
CE A:MET253 4.3 18.9 1.0
ZN A:ZN501 4.3 34.0 1.0
O1 A:VO4503 4.5 32.2 1.0
OG1 A:THR68 4.5 21.2 1.0
OD1 A:ASP29 4.7 24.6 1.0
O A:HOH465 4.8 29.4 1.0

Reference:

V.Agarwal, S.A.Borisova, W.W.Metcalf, W.A.Van Der Donk, S.K.Nair. Structural and Mechanistic Insights Into C-P Bond Hydrolysis By Phosphonoacetate Hydrolase. Chem.Biol. V. 18 1230 2011.
ISSN: ISSN 1074-5521
PubMed: 22035792
DOI: 10.1016/J.CHEMBIOL.2011.07.019
Page generated: Wed Dec 16 04:51:11 2020

Last articles

Zn in 7L0B
Zn in 7KZZ
Zn in 7KZL
Zn in 7L3O
Zn in 7L52
Zn in 7L6T
Zn in 7KZ7
Zn in 7L6R
Zn in 7KKM
Zn in 7KKQ
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy