Manganese in PDB 4c8d: Crystal Structure of Jmjc Domain of Human Histone 3 Lysine- Specific Demethylase 3B (KDM3B)

The structure of Crystal Structure of Jmjc Domain of Human Histone 3 Lysine- Specific Demethylase 3B (KDM3B), PDB code: 4c8d was solved by M.Vollmar, C.Johansson, C.Gileadi, S.Goubin, A.Szykowska, T.Krojer, L.Crawley, F.Von Delft, C.H.Arrowsmith, C.Bountra, A.Edwards, U.Oppermann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	69.12 / 2.18
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	83.340, 85.610, 117.130, 90.00, 90.00, 90.00
R / Rfree (%)	19.43 / 23.911

The structure of Crystal Structure of Jmjc Domain of Human Histone 3 Lysine- Specific Demethylase 3B (KDM3B) also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Manganese atom in the Crystal Structure of Jmjc Domain of Human Histone 3 Lysine- Specific Demethylase 3B (KDM3B) (pdb code 4c8d). 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 Crystal Structure of Jmjc Domain of Human Histone 3 Lysine- Specific Demethylase 3B (KDM3B), PDB code: 4c8d:

Manganese binding site 1 out of 1 in the Crystal Structure of Jmjc Domain of Human Histone 3 Lysine- Specific Demethylase 3B (KDM3B)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Crystal Structure of Jmjc Domain of Human Histone 3 Lysine- Specific Demethylase 3B (KDM3B) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn2721 b:47.6 occ:1.00 O A:HOH2043 1.7 33.5 1.0 NE2 A:HIS1689 2.0 44.7 1.0 O2 A:OGA2722 2.1 41.5 1.0 NE2 A:HIS1560 2.2 62.5 1.0 OD2 A:ASP1562 2.3 53.1 1.0 O2' A:OGA2722 2.3 41.6 1.0 CE1 A:HIS1560 2.8 59.9 1.0 CE1 A:HIS1689 2.9 50.9 1.0 C1 A:OGA2722 2.9 52.8 1.0 C2 A:OGA2722 3.0 61.1 1.0 CD2 A:HIS1689 3.1 49.0 1.0 CD2 A:HIS1560 3.4 60.9 1.0 CG A:ASP1562 3.4 61.2 1.0 O A:HOH2048 3.9 46.7 1.0 OD1 A:ASP1562 4.0 70.0 1.0 ND1 A:HIS1560 4.0 62.5 1.0 ND1 A:HIS1689 4.0 49.6 1.0 O1 A:OGA2722 4.1 50.8 1.0 CG A:HIS1689 4.2 49.6 1.0 N1 A:OGA2722 4.3 65.0 1.0 CG A:HIS1560 4.3 66.5 1.0 OH A:TYR1541 4.4 53.9 1.0 CB A:ASP1562 4.6 62.6 1.0 C4 A:OGA2722 4.9 58.8 1.0 O A:HOH2068 5.0 44.0 1.0

M.Vollmar, C.Johansson, C.Gileadi, S.Goubin, A.Szykowska, T.Krojer, L.Crawley, F.Von Delft, C.H.Arrowsmith, C.Bountra, A.Edwards, U.Oppermann. Crystal Structure of Jmjc Domain of Human Histone 3 Lysine-Specific Demethylase 3B (KDM3B) To Be Published.