Manganese in PDB 6i9m: Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2- Hydroxyglutarate

All present enzymatic activity of Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2- Hydroxyglutarate:
1.14.11.27;

The structure of Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2- Hydroxyglutarate, PDB code: 6i9m was solved by R.Chowdhury, M.S.Islam, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.75 / 1.65
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	49.571, 64.674, 77.437, 90.00, 90.00, 90.00
R / Rfree (%)	15.1 / 18.1

The binding sites of Manganese atom in the Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2- Hydroxyglutarate (pdb code 6i9m). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2- Hydroxyglutarate, PDB code: 6i9m:

Manganese binding site 1 out of 1 in the Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2- Hydroxyglutarate


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2- Hydroxyglutarate within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn501 b:12.4 occ:1.00 OD2 A:ASP323 2.2 11.5 1.0 O1 A:2HG502 2.2 17.1 1.0 O3 A:2HG502 2.2 13.4 1.0 O A:HOH666 2.2 13.7 1.0 NE2 A:HIS321 2.2 13.0 1.0 NE2 A:HIS400 2.3 12.7 1.0 HO3 A:2HG502 2.7 16.1 1.0 C1 A:2HG502 2.9 17.2 1.0 C2 A:2HG502 3.0 14.5 1.0 CG A:ASP323 3.1 16.1 1.0 H2 A:2HG502 3.2 17.4 1.0 CD2 A:HIS321 3.2 13.6 1.0 CE1 A:HIS321 3.2 15.7 1.0 CE1 A:HIS400 3.2 11.9 1.0 HE1 A:HIS400 3.3 14.2 1.0 HD2 A:HIS321 3.3 16.3 1.0 CD2 A:HIS400 3.4 11.2 1.0 HE1 A:HIS321 3.4 18.9 1.0 OD1 A:ASP323 3.5 20.3 1.0 HD2 A:HIS400 3.6 13.5 1.0 HZ2 A:TRP414 3.7 25.9 1.0 O A:HOH646 3.9 20.4 1.0 O2 A:2HG502 4.1 17.3 1.0 HE1 A:TRP414 4.1 21.3 1.0 H2 A:GOL505 4.2 45.9 1.0 HD22 A:ASN327 4.3 19.5 1.0 ND1 A:HIS321 4.3 13.0 1.0 CG A:HIS321 4.3 11.4 1.0 ND1 A:HIS400 4.4 11.6 1.0 O2 A:GOL505 4.4 30.6 1.0 C3 A:2HG502 4.4 13.1 1.0 HH2 A:TRP310 4.4 18.8 1.0 CZ2 A:TRP414 4.5 21.6 1.0 CG A:HIS400 4.5 10.3 1.0 CB A:ASP323 4.5 12.4 1.0 HB2 A:ASP323 4.6 14.9 1.0 HZ2 A:TRP310 4.7 21.2 1.0 HD21 A:ASN327 4.7 19.5 1.0 NE1 A:TRP414 4.7 17.7 1.0 H3A A:2HG502 4.8 15.7 1.0 H4A A:2HG502 4.8 16.8 1.0 ND2 A:ASN327 4.8 16.3 1.0 H4 A:2HG502 4.8 16.8 1.0 C2 A:GOL505 4.9 38.2 1.0 CH2 A:TRP310 4.9 15.6 1.0 CE2 A:TRP414 5.0 15.5 1.0 C4 A:2HG502 5.0 14.0 1.0 H3 A:2HG502 5.0 15.7 1.0

S.Islam, C.J.Schofield, R.Chowdhury. Jmjc Domain-Containing Protein 5 (JMJD5) in Complex with Mn and R-2-Hydroxyglutarate To Be Published.