Manganese in PDB 4gmm: Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp

All present enzymatic activity of Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp:
4.1.1.32;

The structure of Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp, PDB code: 4gmm was solved by T.A.Johnson, T.Holyoak, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.36 / 1.74
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	60.598, 84.774, 119.084, 90.00, 90.00, 90.00
R / Rfree (%)	18.7 / 22.4

The structure of Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Manganese atom in the Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp (pdb code 4gmm). 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 Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp, PDB code: 4gmm:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn703 b:20.1 occ:1.00 OD1 A:ASP311 2.1 15.6 1.0 O1 A:SPV705 2.2 15.9 1.0 O2G A:GTP701 2.2 22.1 1.0 NE2 A:HIS264 2.3 22.3 1.0 O2 A:SPV705 2.3 19.8 1.0 NZ A:LYS244 2.4 20.9 1.0 C1 A:SPV705 2.9 18.2 1.0 C2 A:SPV705 3.0 18.6 1.0 CG A:ASP311 3.0 20.0 1.0 CE1 A:HIS264 3.2 19.5 1.0 CD2 A:HIS264 3.2 19.8 1.0 OD2 A:ASP311 3.3 20.5 1.0 PG A:GTP701 3.3 22.0 1.0 CE A:LYS244 3.4 19.2 1.0 O3G A:GTP701 3.9 21.4 1.0 NZ A:LYS290 3.9 19.7 1.0 O1G A:GTP701 4.0 20.1 1.0 CE A:LYS290 4.1 21.3 1.0 O A:HOH814 4.2 22.6 1.0 O A:HOH803 4.2 20.1 1.0 O2' A:SPV705 4.2 19.6 1.0 OG A:SER286 4.2 21.6 0.5 ND1 A:HIS264 4.4 20.5 1.0 CG A:HIS264 4.4 19.9 1.0 CB A:ASP311 4.4 17.4 1.0 C3 A:SPV705 4.5 18.9 1.0 O3B A:GTP701 4.6 22.0 1.0 CD A:LYS244 4.8 18.1 1.0 O A:ASP311 4.9 20.9 1.0

Manganese binding site 2 out of 2 in the Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Structure of Rat Cytosolic Pepck LD_1G in Complex with Beta- Sulfopyruvate and Gtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn704 b:22.0 occ:1.00 O2B A:GTP701 2.1 20.7 1.0 O A:HOH802 2.2 19.7 1.0 O1G A:GTP701 2.2 20.1 1.0 OG1 A:THR291 2.2 20.4 1.0 O A:HOH803 2.3 20.1 1.0 O A:HOH801 2.3 23.2 1.0 PG A:GTP701 3.3 22.0 1.0 PB A:GTP701 3.3 19.9 1.0 CB A:THR291 3.3 23.2 1.0 O3B A:GTP701 3.5 22.0 1.0 OD2 A:ASP310 3.8 22.8 1.0 O2G A:GTP701 3.9 22.1 1.0 O1A A:GTP701 4.0 23.0 1.0 O A:HOH814 4.0 22.6 1.0 N A:THR291 4.2 21.9 1.0 CA A:THR291 4.3 22.0 1.0 NH1 A:ARG405 4.4 17.9 1.0 O3A A:GTP701 4.4 21.6 1.0 O1B A:GTP701 4.4 19.9 1.0 O A:ASP310 4.4 19.4 1.0 CA A:GLY334 4.4 20.6 1.0 CG2 A:THR291 4.4 23.4 1.0 OD1 A:ASP311 4.5 15.6 1.0 CG A:ASP310 4.5 19.1 1.0 O3G A:GTP701 4.5 21.4 1.0 O A:HOH827 4.7 24.1 1.0 O A:PHE333 4.7 20.8 1.0 PA A:GTP701 4.8 22.4 1.0 N A:VAL335 4.8 21.2 1.0 CB A:LYS290 4.9 18.4 1.0

T.A.Johnson, T.Holyoak. The {Omega}-Loop Lid Domain of Phosphoenolpyruvate Carboxykinase Is Essential For Catalytic Function. Biochemistry V. 51 9547 2012.
ISSN: ISSN 0006-2960
PubMed: 23127136
DOI: 10.1021/BI301278T