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Sodium in PDB 2bs2: Quinol:Fumarate Reductase From Wolinella Succinogenes

Enzymatic activity of Quinol:Fumarate Reductase From Wolinella Succinogenes

All present enzymatic activity of Quinol:Fumarate Reductase From Wolinella Succinogenes:
1.3.99.1;

Protein crystallography data

The structure of Quinol:Fumarate Reductase From Wolinella Succinogenes, PDB code: 2bs2 was solved by C.R.D.Lancaster, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 28.70 / 1.78
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 85.104, 188.766, 117.817, 90.00, 104.47, 90.00
R / Rfree (%) 22.9 / 23.7

Other elements in 2bs2:

The structure of Quinol:Fumarate Reductase From Wolinella Succinogenes also contains other interesting chemical elements:

Iron (Fe) 22 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Quinol:Fumarate Reductase From Wolinella Succinogenes (pdb code 2bs2). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Quinol:Fumarate Reductase From Wolinella Succinogenes, PDB code: 2bs2:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 2bs2

Go back to Sodium Binding Sites List in 2bs2
Sodium binding site 1 out of 2 in the Quinol:Fumarate Reductase From Wolinella Succinogenes


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Quinol:Fumarate Reductase From Wolinella Succinogenes within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1658

b:26.5
occ:1.00
O A:GLU393 2.4 24.3 1.0
O A:HOH2158 2.5 26.6 1.0
O A:SER371 2.5 24.1 1.0
O A:ALA395 2.6 25.8 1.0
O A:GLY373 2.6 26.4 1.0
O A:MET372 2.7 23.3 1.0
C A:MET372 3.1 24.4 1.0
C A:GLU393 3.3 24.4 1.0
C A:GLY373 3.4 27.4 1.0
C A:SER371 3.6 24.9 1.0
CA A:MET372 3.7 25.1 1.0
C A:ALA395 3.7 24.5 1.0
O A:HOH2169 3.8 24.0 1.0
N A:GLY373 3.8 24.9 1.0
CA A:GLU393 3.9 23.9 1.0
O A:HOH2175 4.0 48.0 1.0
N A:MET372 4.1 23.4 1.0
N A:ALA395 4.1 22.5 1.0
N A:GLY374 4.2 26.3 1.0
CA A:GLY373 4.2 24.6 1.0
O A:HOH2159 4.2 34.4 1.0
CG A:GLU393 4.3 24.7 1.0
OH A:TYR370 4.3 25.2 1.0
CA A:GLY374 4.3 26.5 1.0
N A:ALA394 4.4 22.8 1.0
C A:ALA394 4.4 23.0 1.0
O A:GLY392 4.5 24.0 1.0
CA A:ALA395 4.5 24.2 1.0
CB A:GLU393 4.7 24.7 1.0
CB A:SER371 4.7 22.8 1.0
N A:CYS396 4.7 27.5 1.0
CZ A:TYR370 4.7 26.9 1.0
CA A:ALA394 4.7 21.1 1.0
CE2 A:TYR370 4.8 26.4 1.0
CA A:SER371 4.8 24.5 1.0
CA A:CYS396 4.9 28.0 1.0
O A:ALA394 4.9 23.2 1.0

Sodium binding site 2 out of 2 in 2bs2

Go back to Sodium Binding Sites List in 2bs2
Sodium binding site 2 out of 2 in the Quinol:Fumarate Reductase From Wolinella Succinogenes


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Quinol:Fumarate Reductase From Wolinella Succinogenes within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na1658

b:26.9
occ:1.00
O D:HOH2156 2.3 29.2 1.0
O D:GLU393 2.4 24.4 1.0
O D:SER371 2.5 25.7 1.0
O D:ALA395 2.6 25.3 1.0
O D:GLY373 2.7 25.0 1.0
O D:MET372 2.7 25.8 1.0
C D:MET372 3.1 24.5 1.0
C D:GLU393 3.3 22.0 1.0
C D:GLY373 3.5 26.9 1.0
C D:SER371 3.6 25.7 1.0
CA D:MET372 3.7 25.1 1.0
C D:ALA395 3.7 25.6 1.0
O D:HOH2168 3.8 26.0 1.0
N D:GLY373 3.9 24.4 1.0
CA D:GLU393 3.9 22.0 1.0
O D:HOH2174 3.9 52.2 1.0
N D:MET372 4.1 24.9 1.0
N D:ALA395 4.2 23.7 1.0
O D:HOH2157 4.2 30.3 1.0
N D:GLY374 4.2 24.3 1.0
CA D:GLY373 4.2 26.1 1.0
OH D:TYR370 4.2 25.2 1.0
CG D:GLU393 4.3 22.5 1.0
CA D:GLY374 4.4 26.3 1.0
N D:ALA394 4.4 20.6 1.0
O D:GLY392 4.4 22.5 1.0
C D:ALA394 4.4 22.1 1.0
CA D:ALA395 4.5 24.6 1.0
CZ D:TYR370 4.7 24.1 1.0
N D:CYS396 4.7 28.0 1.0
CB D:GLU393 4.7 19.9 1.0
CE2 D:TYR370 4.7 25.6 1.0
CB D:SER371 4.8 22.9 1.0
CA D:ALA394 4.8 22.0 1.0
CA D:SER371 4.8 24.4 1.0
CA D:CYS396 4.9 29.1 1.0
O D:ALA394 4.9 24.4 1.0

Reference:

M.G.Madej, H.R.Nasiri, N.S.Hilgendorff, H.Schwalbe, C.R.D.Lancaster. Evidence For Transmembrane Proton Transfer in A Dihaem-Containing Membrane Protein Complex. Embo J. V. 25 4963 2006.
ISSN: ISSN 0261-4189
PubMed: 17024183
DOI: 10.1038/SJ.EMBOJ.7601361
Page generated: Thu Oct 29 04:08:09 2020

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