Iron in PDB 7eyu: Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D

The structure of Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D, PDB code: 7eyu was solved by H.Tao, T.Mori, I.Abe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.85 / 2.05
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	42.813, 50.583, 71.982, 109.11, 91.29, 112.86
R / Rfree (%)	24.1 / 27.8

The binding sites of Iron atom in the Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D (pdb code 7eyu). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D, PDB code: 7eyu:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in the Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D within 5.0Å range: probe atom residue distance (Å) B Occ B:Fe303 b:32.4 occ:1.00 O2' B:OGA301 2.0 20.6 0.9 NE2 B:HIS205 2.2 15.4 1.0 OD1 B:ASP130 2.3 10.5 1.0 NE2 B:HIS128 2.4 10.0 1.0 O B:HOH465 2.4 8.9 1.0 O1 B:OGA301 2.6 14.2 0.9 C2 B:OGA301 2.9 16.8 0.9 CE1 B:HIS205 2.9 14.1 1.0 C1 B:OGA301 3.2 16.5 0.9 CG B:ASP130 3.2 14.9 1.0 CD2 B:HIS205 3.3 9.8 1.0 CE1 B:HIS128 3.3 7.3 1.0 CD2 B:HIS128 3.4 9.2 1.0 OD2 B:ASP130 3.4 10.6 1.0 ND1 B:HIS205 4.1 10.8 1.0 N1 B:OGA301 4.1 19.1 0.9 CG B:HIS205 4.3 10.9 1.0 O2 B:OGA301 4.4 15.6 0.9 ND1 B:HIS128 4.5 10.3 1.0 O B:HOH412 4.5 20.9 1.0 CG B:HIS128 4.5 14.8 1.0 CAQ B:0CC302 4.6 13.1 0.9 CAV B:0CC302 4.6 13.1 0.9 CB B:ASP130 4.6 9.0 1.0 C4 B:OGA301 4.7 13.7 0.9 CAZ B:0CC302 4.9 18.8 0.9 CA B:ASP130 4.9 12.0 1.0 CAA B:0CC302 4.9 10.4 0.9

Iron binding site 2 out of 2 in the Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Fe(II)/(Alpha)Ketoglutarate-Dependent Dioxygenase Sptf-N65T Mutant with Andiconin D within 5.0Å range: probe atom residue distance (Å) B Occ A:Fe301 b:48.8 occ:1.00 NE2 A:HIS128 2.5 15.6 1.0 OD1 A:ASP130 2.6 13.9 1.0 NE2 A:HIS205 2.6 17.9 1.0 CE1 A:HIS205 3.4 17.9 1.0 CE1 A:HIS128 3.4 19.2 1.0 CD2 A:HIS128 3.5 17.0 1.0 CG A:ASP130 3.6 20.0 1.0 CD2 A:HIS205 3.6 17.6 1.0 OD2 A:ASP130 3.9 11.4 1.0 ND1 A:HIS128 4.6 13.5 1.0 ND1 A:HIS205 4.6 15.2 1.0 CG A:HIS128 4.6 17.2 1.0 CG A:HIS205 4.7 15.9 1.0 CD2 A:LEU199 4.8 15.8 1.0 OE1 A:GLN125 4.8 14.5 1.0 CB A:ASP130 4.9 9.5 1.0

H.Tao, T.Mori, H.Chen, S.Lyu, A.Nonoyama, S.Lee, I.Abe. Molecular Insights Into the Unusually Promiscuous and Catalytically Versatile Fe(II)/ Alpha-Ketoglutarate-Dependent Oxygenase Sptf. Nat Commun V. 13 95 2022.
ISSN: ESSN 2041-1723
PubMed: 35013177
DOI: 10.1038/S41467-021-27636-3