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Manganese in PDB 4b02: The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase

Enzymatic activity of The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase

All present enzymatic activity of The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase:
2.7.7.48;

Protein crystallography data

The structure of The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase, PDB code: 4b02 was solved by L.P.Sarin, S.Wright, Q.Chen, L.H.Degerth, D.I.Stuart, J.M.Grimes, D.H.Bamford, M.M.Poranen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.39 / 3.30
Space group P 32
Cell size a, b, c (Å), α, β, γ (°) 105.070, 105.070, 157.530, 90.00, 90.00, 120.00
R / Rfree (%) 21.85 / 24.19

Manganese Binding Sites:

The binding sites of Manganese atom in the The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase (pdb code 4b02). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 3 binding sites of Manganese where determined in the The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase, PDB code: 4b02:
Jump to Manganese binding site number: 1; 2; 3;

Manganese binding site 1 out of 3 in 4b02

Go back to Manganese Binding Sites List in 4b02
Manganese binding site 1 out of 3 in the The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn665

b:0.0
occ:1.00
 OE1 A:GLU491 2.1 51.6 1.0
OD1 A:ASP454 2.2 62.0 1.0
O A:ALA495 2.3 51.0 1.0
CD A:GLU491 3.1 56.3 1.0
CG A:ASP454 3.2 65.8 1.0
C A:ALA495 3.5 49.7 1.0
OE2 A:GLU491 3.5 61.2 1.0
OD2 A:ASP454 3.7 62.4 1.0
O A:THR323 3.9 65.8 1.0
N A:ALA495 4.2 46.2 1.0
CG A:GLU491 4.3 56.8 1.0
CA A:ALA495 4.3 46.1 1.0
N A:PHE496 4.4 41.7 1.0
O A:ALA455 4.4 56.7 1.0
CA A:PHE496 4.4 41.2 1.0
CB A:ASP454 4.4 61.5 1.0
CB A:GLU491 4.5 58.5 1.0
N A:ALA455 4.6 57.0 1.0
CA A:ASP454 4.6 61.0 1.0
CB A:ALA495 4.8 47.2 1.0
CB A:ALA322 5.0 58.4 1.0

Manganese binding site 2 out of 3 in 4b02

Go back to Manganese Binding Sites List in 4b02
Manganese binding site 2 out of 3 in the The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mn665

b:1.0
occ:1.00
 OE1 B:GLU491 2.1 52.3 1.0
OD1 B:ASP454 2.2 73.3 1.0
O B:ALA495 2.3 61.2 1.0
CD B:GLU491 3.1 57.0 1.0
CG B:ASP454 3.2 77.2 1.0
C B:ALA495 3.5 60.0 1.0
OE2 B:GLU491 3.5 61.9 1.0
OD2 B:ASP454 3.7 73.7 1.0
O B:THR323 3.9 80.4 1.0
N B:ALA495 4.2 56.5 1.0
CG B:GLU491 4.3 57.5 1.0
CA B:ALA495 4.4 56.4 1.0
N B:PHE496 4.4 56.8 1.0
CB B:ASP454 4.4 72.9 1.0
CA B:PHE496 4.4 56.3 1.0
O B:ALA455 4.5 70.5 1.0
CB B:GLU491 4.5 59.2 1.0
N B:ALA455 4.6 70.8 1.0
CA B:ASP454 4.6 72.4 1.0
CB B:ALA495 4.8 57.4 1.0
CB B:ALA322 5.0 75.5 1.0

Manganese binding site 3 out of 3 in 4b02

Go back to Manganese Binding Sites List in 4b02
Manganese binding site 3 out of 3 in the The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 3 of The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mn665

b:0.2
occ:1.00
 OE1 C:GLU491 2.1 76.6 1.0
OD1 C:ASP454 2.2 73.0 1.0
O C:ALA495 2.3 87.3 1.0
CD C:GLU491 3.1 81.3 1.0
CG C:ASP454 3.2 76.8 1.0
C C:ALA495 3.5 86.0 1.0
OE2 C:GLU491 3.5 86.2 1.0
OD2 C:ASP454 3.7 73.3 1.0
O C:THR323 3.9 93.4 1.0
N C:ALA495 4.2 82.5 1.0
CG C:GLU491 4.3 81.8 1.0
CA C:ALA495 4.4 82.4 1.0
O C:ALA455 4.4 69.1 1.0
N C:PHE496 4.4 81.2 1.0
CA C:PHE496 4.4 80.7 1.0
CB C:ASP454 4.5 72.5 1.0
CB C:GLU491 4.5 83.5 1.0
N C:ALA455 4.6 69.4 1.0
CA C:ASP454 4.6 72.0 1.0
CB C:ALA495 4.8 83.5 1.0
CB C:ALA322 5.0 89.6 1.0

Reference:

L.P.Sarin, S.Wright, Q.Chen, L.H.Degerth, D.I.Stuart, J.M.Grimes, D.H.Bamford, M.M.Poranen. The C-Terminal Priming Domain Is Strongly Associated with the Main Body of Bacteriophage PHI6 Rna-Dependent Rna Polymerase. Virology V. 432 184 2012.
ISSN: ISSN 0042-6822
PubMed: 22770923
DOI: 10.1016/J.VIROL.2012.05.035
Page generated: Tue Dec 15 04:18:22 2020

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