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Ruthenium in PDB 3o7r: Crystal Structure of Ru(P-Cymene)/Apo-H49AFR

Protein crystallography data

The structure of Crystal Structure of Ru(P-Cymene)/Apo-H49AFR, PDB code: 3o7r was solved by Y.Takezawa, P.Bockmann, N.Sugi, Z.Wang, S.Abe, T.Murakami, T.Hikage, G.Erker, Y.Watanabe, S.Kitagawa, T.Ueno, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.28 / 1.90
Space group F 4 3 2
Cell size a, b, c (Å), α, β, γ (°) 181.703, 181.703, 181.703, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 23.7

Other elements in 3o7r:

The structure of Crystal Structure of Ru(P-Cymene)/Apo-H49AFR also contains other interesting chemical elements:

Cadmium (Cd) 3 atoms

Ruthenium Binding Sites:

The binding sites of Ruthenium atom in the Crystal Structure of Ru(P-Cymene)/Apo-H49AFR (pdb code 3o7r). This binding sites where shown within 5.0 Angstroms radius around Ruthenium atom.
In total 2 binding sites of Ruthenium where determined in the Crystal Structure of Ru(P-Cymene)/Apo-H49AFR, PDB code: 3o7r:
Jump to Ruthenium binding site number: 1; 2;

Ruthenium binding site 1 out of 2 in 3o7r

Go back to Ruthenium Binding Sites List in 3o7r
Ruthenium binding site 1 out of 2 in the Crystal Structure of Ru(P-Cymene)/Apo-H49AFR


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 1 of Crystal Structure of Ru(P-Cymene)/Apo-H49AFR within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru178

b:59.1
occ:0.50
NE2 A:HIS114 2.3 45.9 1.0
O A:HOH370 2.4 38.3 1.0
CE1 A:HIS114 2.7 46.3 1.0
OE2 A:GLU130 2.7 58.3 1.0
CB A:CYS126 3.1 50.8 1.0
SG A:CYS126 3.4 55.3 1.0
CD2 A:HIS114 3.6 44.6 1.0
CD A:GLU130 3.9 57.6 1.0
ND1 A:HIS114 3.9 45.3 1.0
OG A:SER118 4.2 52.1 1.0
OE1 A:GLU130 4.3 59.5 1.0
CG A:HIS114 4.4 44.0 1.0
CA A:CYS126 4.4 50.5 1.0
C A:CYS126 4.8 50.7 1.0

Ruthenium binding site 2 out of 2 in 3o7r

Go back to Ruthenium Binding Sites List in 3o7r
Ruthenium binding site 2 out of 2 in the Crystal Structure of Ru(P-Cymene)/Apo-H49AFR


Mono view


Stereo pair view

A full contact list of Ruthenium with other atoms in the Ru binding site number 2 of Crystal Structure of Ru(P-Cymene)/Apo-H49AFR within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ru179

b:55.3
occ:0.30
NE2 A:HIS173 1.6 54.5 1.0
CE1 A:HIS173 2.3 53.5 1.0
CD2 A:HIS173 2.8 51.8 1.0
ND1 A:HIS173 3.5 51.4 1.0
CG A:HIS173 3.7 49.1 1.0
O A:LEU169 4.9 15.3 1.0
O A:HOH363 4.9 33.7 1.0

Reference:

Y.Takezawa, P.Bockmann, N.Sugi, Z.Wang, S.Abe, T.Murakami, T.Hikage, G.Erker, Y.Watanabe, S.Kitagawa, T.Ueno. Incorporation of Organometallic Ru Complexes Into Apo-Ferritin Cage. J.Chem.Soc.,Dalton Trans. V. 40 2190 2011.
ISSN: ISSN 0300-9246
PubMed: 21113534
DOI: 10.1039/C0DT00955E
Page generated: Mon Jan 25 16:02:22 2021

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