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Manganese in PDB 4a8o: Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation

Enzymatic activity of Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation

All present enzymatic activity of Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation:
2.7.7.48;

Protein crystallography data

The structure of Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation, PDB code: 4a8o was solved by S.Wright, M.M.Poranen, D.H.Bamford, D.I.Stuart, J.M.Grimes, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.09 / 2.67
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 106.190, 92.450, 141.040, 90.00, 101.47, 90.00
R / Rfree (%) 21.51 / 22.47

Manganese Binding Sites:

The binding sites of Manganese atom in the Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation (pdb code 4a8o). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation, PDB code: 4a8o:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in 4a8o

Go back to Manganese Binding Sites List in 4a8o
Manganese binding site 1 out of 3 in the Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn1665

b:0.0
occ:1.00
 OD1 A:ASP454 2.1 69.2 1.0
OE1 A:GLU491 2.1 57.4 1.0
O A:ALA495 2.2 51.4 1.0
CD A:GLU491 3.1 68.0 1.0
CG A:ASP454 3.2 66.8 1.0
C A:ALA495 3.4 51.4 1.0
OE2 A:GLU491 3.5 58.5 1.0
OD2 A:ASP454 3.6 70.9 1.0
O A:THR323 4.0 55.9 1.0
N A:ALA495 4.1 48.9 1.0
CA A:ALA495 4.2 48.1 1.0
N A:PHE496 4.3 47.3 1.0
CG A:GLU491 4.3 57.0 1.0
CA A:PHE496 4.4 46.4 1.0
O A:ALA455 4.4 50.4 1.0
CB A:ASP454 4.4 54.3 1.0
CB A:GLU491 4.5 51.2 1.0
N A:ALA455 4.5 48.7 1.0
CB A:ALA495 4.6 48.3 1.0
CA A:ASP454 4.7 52.6 1.0

Manganese binding site 2 out of 3 in 4a8o

Go back to Manganese Binding Sites List in 4a8o
Manganese binding site 2 out of 3 in the Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn1665

b:0.6
occ:1.00
 OE1 B:GLU491 2.4 66.8 1.0
O B:ALA495 2.5 56.4 1.0
OD1 B:ASP454 2.6 65.2 1.0
CD B:GLU491 3.2 75.9 1.0
CG B:ASP454 3.5 64.5 1.0
C B:ALA495 3.6 57.0 1.0
OE2 B:GLU491 3.6 65.9 1.0
O B:THR323 3.9 60.3 1.0
OD2 B:ASP454 4.2 70.8 1.0
N B:ALA455 4.3 52.0 1.0
N B:ALA495 4.3 54.3 1.0
CA B:ASP454 4.4 53.1 1.0
O B:ALA455 4.4 53.7 1.0
CG B:GLU491 4.5 61.9 1.0
CB B:ASP454 4.5 55.0 1.0
CA B:ALA495 4.5 53.8 1.0
N B:PHE496 4.5 53.4 1.0
CA B:PHE496 4.5 52.8 1.0
CB B:GLU491 4.7 53.1 1.0
C B:ASP454 4.8 55.9 1.0
CB B:ALA495 4.9 54.0 1.0

Manganese binding site 3 out of 3 in 4a8o

Go back to Manganese Binding Sites List in 4a8o
Manganese binding site 3 out of 3 in the Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of Non-Catalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Dsrna Virus PHI6 From De Novo Initiation to Elongation within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn1665

b:0.6
occ:1.00
 OE1 C:GLU491 2.5 57.3 1.0
OD1 C:ASP454 2.8 63.5 1.0
O C:THR323 3.2 57.9 1.0
O C:ALA495 3.2 51.5 1.0
CD C:GLU491 3.3 71.3 1.0
OE2 C:GLU491 3.8 63.4 1.0
CG C:ASP454 3.8 62.8 1.0
O C:ALA455 4.1 57.5 1.0
N C:ALA455 4.2 53.3 1.0
CG C:GLU491 4.3 61.1 1.0
CA C:ASP454 4.3 52.6 1.0
CB C:GLU491 4.3 57.0 1.0
C C:ALA495 4.4 52.2 1.0
C C:THR323 4.4 58.5 1.0
OD2 C:ASP454 4.5 69.3 1.0
CB C:ASP454 4.6 53.7 1.0
C C:ASP454 4.8 56.0 1.0
O C:ASP453 4.9 58.1 1.0
N C:ALA495 4.9 50.1 1.0
N C:THR323 4.9 54.6 1.0
C C:ALA455 5.0 57.8 1.0

Reference:

S.Wright, M.M.Poranen, D.H.Bamford, D.I.Stuart, J.M.Grimes. Noncatalytic Ions Direct the Rna-Dependent Rna Polymerase of Bacterial Double-Stranded Rna Virus PHI6 From De Novo Initiation to Elongation. J.Virol. V. 86 2837 2012.
ISSN: ISSN 0022-538X
PubMed: 22205747
DOI: 10.1128/JVI.05168-11
Page generated: Sat Oct 5 18:44:11 2024

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