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Molybdenum in PDB 2jir: A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand

Enzymatic activity of A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand

All present enzymatic activity of A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand:
1.7.99.4;

Protein crystallography data

The structure of A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand, PDB code: 2jir was solved by S.Najmudin, P.J.Gonzalez, J.Trincao, C.Coelho, A.Mukhopadhyay, C.C.Romao, I.Moura, J.J.G.Moura, C.D.Brondino, M.J.Romao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 92.06 / 2.35
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 106.243, 106.243, 134.626, 90.00, 90.00, 120.00
R / Rfree (%) 16.4 / 23.5

Other elements in 2jir:

The structure of A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand also contains other interesting chemical elements:

Iron (Fe) 4 atoms

Molybdenum Binding Sites:

The binding sites of Molybdenum atom in the A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand (pdb code 2jir). This binding sites where shown within 5.0 Angstroms radius around Molybdenum atom.
In total only one binding site of Molybdenum was determined in the A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand, PDB code: 2jir:

Molybdenum binding site 1 out of 1 in 2jir

Go back to Molybdenum Binding Sites List in 2jir
Molybdenum binding site 1 out of 1 in the A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand


Mono view


Stereo pair view

A full contact list of Molybdenum with other atoms in the Mo binding site number 1 of A New Catalytic Mechanism of Periplasmic Nitrate Reductase From Desulfovibrio Desulfuricans Atcc 27774 From Crystallographic and Epr Data and Based on Detailed Analysis of the Sixth Ligand within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mo810

b:39.8
occ:1.00
 N A:CYN813 2.2 32.3 1.0
SG A:CYS140 2.2 43.3 1.0
S13 A:MGD811 2.3 33.5 1.0
S12 A:MGD811 2.4 36.9 1.0
S12 A:MGD812 2.4 37.5 1.0
S13 A:MGD812 2.5 39.6 1.0
CB A:CYS140 3.3 40.6 1.0
C A:CYN813 3.3 37.6 1.0
C13 A:MGD812 3.4 37.4 1.0
C13 A:MGD811 3.4 37.4 1.0
C12 A:MGD811 3.4 35.5 1.0
C12 A:MGD812 3.4 38.8 1.0
CA A:GLY345 4.3 41.0 1.0
NH1 A:ARG617 4.4 51.1 1.0
CG A:GLN346 4.4 38.8 1.0
CA A:CYS140 4.4 40.3 1.0
CE1 A:HIS623 4.4 44.1 1.0
NE2 A:GLN346 4.5 41.4 1.0
NE2 A:HIS623 4.5 45.5 1.0
N A:GLN346 4.5 40.9 1.0
C A:GLY345 4.5 41.1 1.0
C14 A:MGD812 4.8 36.7 1.0
SD A:MET308 4.8 38.6 1.0
C14 A:MGD811 4.8 36.0 1.0
C11 A:MGD811 4.8 35.8 1.0
N A:GLY345 4.8 40.9 1.0
C11 A:MGD812 4.9 37.5 1.0
CD A:GLN346 4.9 40.8 1.0
CE A:MET308 5.0 30.5 1.0
CB A:GLN346 5.0 39.8 1.0

Reference:

S.Najmudin, P.J.Gonzalez, J.Trincao, C.Coelho, A.Mukhopadhyay, N.M.F.S.A.Cerqueira, C.C.Romao, I.Moura, J.J.G.Moura, C.D.Brondino, M.J.Romao. Periplasmic Nitrate Reductase Revisited: A Sulfur Atom Completes the Sixth Coordination of the Catalytic Molybdenum. J.Biol.Inorg.Chem. V. 13 737 2008.
ISSN: ISSN 0949-8257
PubMed: 18327621
DOI: 10.1007/S00775-008-0359-6
Page generated: Sun Oct 6 15:46:43 2024

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