Manganese in PDB 2hbk: Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn

The structure of Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn, PDB code: 2hbk was solved by S.F.Midtgaard, J.Assenholt, A.T.Jonstrup, L.B.Van, T.H.Jensen, D.E.Brodersen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	36.22 / 2.25
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	110.680, 110.680, 79.729, 90.00, 90.00, 120.00
R / Rfree (%)	22.2 / 27.9

The binding sites of Manganese atom in the Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn (pdb code 2hbk). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn, PDB code: 2hbk:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1001 b:36.8 occ:1.00 O A:HOH1003 2.0 32.5 1.0 OE2 A:GLU240 2.1 35.8 1.0 OD2 A:ASP365 2.1 38.7 1.0 O A:HOH1004 2.4 28.8 1.0 O A:HOH1006 2.5 35.6 1.0 O A:HOH1005 2.5 38.9 1.0 CD A:GLU240 2.9 36.8 1.0 CG A:ASP365 3.1 28.9 1.0 OE1 A:GLU240 3.1 32.3 1.0 OD1 A:ASP365 3.3 30.6 1.0 O A:HOH1142 3.8 53.0 1.0 OE1 A:GLN255 4.1 32.9 1.0 O A:HOH1236 4.3 68.1 1.0 CG A:GLU240 4.3 30.0 1.0 NE2 A:GLN345 4.4 0.5 1.0 OD2 A:ASP238 4.4 36.7 1.0 O A:LEU239 4.4 31.2 1.0 CB A:ASP365 4.4 23.2 1.0 O A:HOH1008 4.6 36.8 1.0 O A:ALA361 4.9 38.3 1.0 CG A:ASP238 4.9 39.3 1.0

Manganese binding site 2 out of 2 in the Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structure of the Yeast Nuclear Exosome Component, RRP6P, Reveals An Interplay Between the Active Site and the Hrdc Domain; Protein in Complex with Mn within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn1002 b:37.5 occ:1.00 O A:HOH1008 1.9 36.8 1.0 O A:HOH1007 2.0 41.1 1.0 OD2 A:ASP296 2.2 41.4 1.0 OD1 A:ASP238 2.2 33.3 1.0 O A:HOH1009 2.3 34.4 1.0 O A:HOH1010 2.3 39.7 1.0 CG A:ASP296 3.1 42.1 1.0 CG A:ASP238 3.2 39.3 1.0 OD1 A:ASP296 3.3 40.9 1.0 OD2 A:ASP238 3.5 36.7 1.0 O A:HOH1004 3.9 28.8 1.0 O A:HOH1232 4.2 70.8 1.0 O A:HOH1115 4.2 45.5 1.0 O A:LEU239 4.2 31.2 1.0 N A:LEU239 4.2 30.4 1.0 O A:HOH1016 4.3 27.9 1.0 CB A:ASP238 4.5 29.3 1.0 CB A:ASP296 4.5 36.1 1.0 O A:HIS291 4.6 31.0 1.0 O A:HOH1038 4.6 39.9 1.0 CA A:ASP238 4.6 36.8 1.0 O A:HOH1171 4.8 63.2 1.0 O A:GLY292 4.8 37.9 1.0 O A:HOH1159 4.9 53.7 1.0 C A:ASP238 5.0 32.2 1.0

S.F.Midtgaard, J.Assenholt, A.T.Jonstrup, L.B.Van, T.H.Jensen, D.E.Brodersen. Structure of the Nuclear Exosome Component RRP6P Reveals An Interplay Between the Active Site and the Hrdc Domain. Proc.Natl.Acad.Sci.Usa V. 103 11898 2006.
ISSN: ISSN 0027-8424
PubMed: 16882719
DOI: 10.1073/PNAS.0604731103