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Copper in PDB 7qxk: As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain)

Enzymatic activity of As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain)

All present enzymatic activity of As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain):
1.7.2.1;

Protein crystallography data

The structure of As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain), PDB code: 7qxk was solved by S.L.Rose, S.Baba, H.Okumura, S.V.Antonyuk, D.Sasaki, T.Tosha, T.Kumasaka, R.R.Eady, M.Yamamoto, S.S.Hasnain, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 47.99 / 1.35
Space group P 21 3
Cell size a, b, c (Å), α, β, γ (°) 107.215, 107.215, 107.215, 90, 90, 90
R / Rfree (%) 12.4 / 14.5

Copper Binding Sites:

The binding sites of Copper atom in the As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain) (pdb code 7qxk). This binding sites where shown within 5.0 Angstroms radius around Copper atom.
In total 2 binding sites of Copper where determined in the As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain), PDB code: 7qxk:
Jump to Copper binding site number: 1; 2;

Copper binding site 1 out of 2 in 7qxk

Go back to Copper Binding Sites List in 7qxk
Copper binding site 1 out of 2 in the As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 1 of As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu406

b:12.2
occ:1.00
ND1 A:HIS140 2.0 12.2 1.0
ND1 A:HIS89 2.0 9.7 1.0
SG A:CYS130 2.2 11.8 1.0
SD A:MET145 2.5 12.4 1.0
CE1 A:HIS89 2.9 10.9 1.0
CE1 A:HIS140 2.9 11.1 1.0
CG A:HIS140 3.1 12.1 1.0
CG A:HIS89 3.1 11.1 1.0
CB A:CYS130 3.2 10.8 1.0
CE A:MET145 3.3 12.8 1.0
CB A:HIS140 3.4 10.5 1.0
CB A:HIS89 3.5 11.4 1.0
CA A:HIS89 3.8 11.4 1.0
CG A:MET145 4.0 11.3 1.0
O A:PRO88 4.1 13.2 1.0
NE2 A:HIS140 4.1 12.8 1.0
CG A:PRO132 4.1 12.2 0.7
NE2 A:HIS89 4.1 12.0 1.0
CD2 A:HIS140 4.2 13.8 1.0
CD2 A:HIS89 4.2 11.4 1.0
CG A:PRO132 4.4 11.2 0.3
CB A:MET145 4.5 11.4 1.0
CD A:PRO132 4.6 11.5 0.7
SD A:MET56 4.6 13.1 0.5
CA A:CYS130 4.6 10.7 1.0
N A:ASN90 4.6 12.1 1.0
CA A:HIS140 4.7 10.5 1.0
CD A:PRO132 4.8 11.2 0.3
C A:HIS89 4.8 12.1 1.0
N A:HIS89 4.8 11.8 1.0
C A:PRO88 4.9 12.0 1.0

Copper binding site 2 out of 2 in 7qxk

Go back to Copper Binding Sites List in 7qxk
Copper binding site 2 out of 2 in the As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain)


Mono view


Stereo pair view

A full contact list of Copper with other atoms in the Cu binding site number 2 of As Isolated Msox Movie Series Dataset 1 (0.4 Mgy) of the Copper Nitrite Reductase From Bradyrhizobium Sp. Ors 375 (Two-Domain) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cu407

b:11.7
occ:0.90
O A:HOH501 1.9 26.6 1.0
NE2 A:HIS94 2.0 10.3 1.0
NE2 A:HIS129 2.1 11.4 1.0
CE1 A:HIS94 3.0 10.2 1.0
OD2 A:ASP92 3.0 19.2 0.3
CD2 A:HIS129 3.1 10.9 1.0
CD2 A:HIS94 3.1 9.3 1.0
CE1 A:HIS129 3.1 11.0 1.0
OD2 A:ASP92 3.8 16.3 0.7
O A:HOH578 4.0 13.5 0.3
O A:HOH578 4.1 20.6 0.7
ND1 A:HIS94 4.1 9.4 1.0
CG A:ASP92 4.2 16.8 0.3
CG A:HIS94 4.2 9.2 1.0
CG A:HIS129 4.2 10.5 1.0
ND1 A:HIS129 4.3 10.7 1.0
CG A:ASP92 4.4 14.9 0.7
OD1 A:ASP92 4.5 14.9 0.7
OD1 A:ASP92 4.8 17.7 0.3
O A:HOH776 4.9 16.0 1.0

Reference:

S.L.Rose, S.Baba, H.Okumura, S.V.Antonyuk, D.Sasaki, T.M.Hedison, M.Shanmugam, D.J.Heyes, N.S.Scrutton, T.Kumasaka, T.Tosha, R.R.Eady, M.Yamamoto, S.S.Hasnain. Single Crystal Spectroscopy and Multiple Structures From One Crystal (Msox) Define Catalysis in Copper Nitrite Reductases. Proc.Natl.Acad.Sci.Usa V. 119 64119 2022.
ISSN: ESSN 1091-6490
PubMed: 35862453
DOI: 10.1073/PNAS.2205664119
Page generated: Mon Jul 14 08:23:39 2025

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