Magnesium in PDB 4fi3: Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State

All present enzymatic activity of Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State:
3.6.3.33;

The structure of Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State, PDB code: 4fi3 was solved by V.M.Korkhov, S.A.Mireku, K.P.Locher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 3.47
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	127.730, 211.990, 179.100, 90.00, 90.00, 90.00
R / Rfree (%)	22.9 / 27.4

The binding sites of Magnesium atom in the Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State (pdb code 4fi3). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State, PDB code: 4fi3:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ C:Mg302 b:57.3 occ:1.00 O2B C:ANP301 2.5 0.7 1.0 O3G C:ANP301 2.6 0.1 1.0 OG C:SER40 2.6 0.8 1.0 NE2 C:GLN80 2.9 0.0 1.0 OE1 C:GLN80 3.1 0.5 1.0 CD C:GLN80 3.2 0.3 1.0 CB C:SER40 3.4 0.9 1.0 O2A C:ANP301 3.5 0.1 1.0 NE2 C:GLN159 3.6 0.7 1.0 PG C:ANP301 3.8 0.3 1.0 PB C:ANP301 3.9 0.1 1.0 OD2 C:ASP158 4.1 0.7 1.0 O1G C:ANP301 4.2 0.8 1.0 OD1 C:ASP158 4.2 0.8 1.0 CG C:GLN80 4.3 98.8 1.0 N3B C:ANP301 4.4 1.0 1.0 N C:SER40 4.4 0.4 1.0 PA C:ANP301 4.5 0.6 1.0 CA C:SER40 4.5 0.2 1.0 N D:GLY129 4.5 0.4 1.0 CD C:GLN159 4.5 0.7 1.0 CG C:ASP158 4.6 0.5 1.0 O3A C:ANP301 4.6 0.8 1.0 O1A C:ANP301 4.8 0.0 1.0 CB C:GLN80 4.8 92.9 1.0 CA D:GLY129 4.9 1.0 1.0 OE1 C:GLN159 5.0 0.7 1.0

Magnesium binding site 2 out of 2 in the Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Vitamin B12 Transporter Btucd-F in A Nucleotide-Bound State within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg302 b:57.3 occ:1.00 OG D:SER40 2.6 0.9 1.0 O2B D:ANP301 2.7 0.9 1.0 O3G D:ANP301 2.7 1.0 1.0 NE2 D:GLN80 3.0 1.0 1.0 OE1 D:GLN80 3.1 0.8 1.0 CD D:GLN80 3.2 0.0 1.0 CB D:SER40 3.4 0.6 1.0 NE2 D:GLN159 3.4 0.7 1.0 O2A D:ANP301 3.7 0.9 1.0 PG D:ANP301 3.9 0.1 1.0 OD2 D:ASP158 4.0 0.1 1.0 OD1 D:ASP158 4.0 0.8 1.0 PB D:ANP301 4.0 0.4 1.0 O1G D:ANP301 4.3 0.4 1.0 CG D:GLN80 4.3 0.9 1.0 CD D:GLN159 4.3 0.3 1.0 N D:SER40 4.4 0.2 1.0 CG D:ASP158 4.4 0.7 1.0 CA D:SER40 4.5 98.6 1.0 N3B D:ANP301 4.5 0.5 1.0 PA D:ANP301 4.6 1.0 1.0 N C:GLY129 4.6 0.3 1.0 CB D:GLN80 4.7 0.4 1.0 O3A D:ANP301 4.8 0.8 1.0 OE1 D:GLN159 4.8 0.3 1.0 O1A D:ANP301 5.0 0.0 1.0

V.M.Korkhov, S.A.Mireku, K.P.Locher. Structure of Amp-Pnp-Bound Vitamin B12 Transporter Btucd-F. Nature V. 490 367 2012.
ISSN: ISSN 0028-0836
PubMed: 23000901
DOI: 10.1038/NATURE11442