Manganese in PDB 5fh1: The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp

All present enzymatic activity of The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp:
4.1.1.32;

The structure of The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp, PDB code: 5fh1 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)	59.56 / 1.55
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	45.523, 119.119, 60.894, 90.00, 107.66, 90.00
R / Rfree (%)	18.4 / 21.8

The structure of The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp also contains other interesting chemical elements:

Sodium

(Na)

1 atom

The binding sites of Manganese atom in the The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp (pdb code 5fh1). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp, PDB code: 5fh1:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn701 b:27.7 occ:1.00 O3G A:GTP703 2.1 28.1 1.0 O2B A:GTP703 2.1 26.3 1.0 O A:HOH961 2.2 26.0 1.0 O A:HOH819 2.2 27.3 1.0 OG1 A:THR291 2.2 29.3 1.0 O A:HOH810 2.2 29.1 1.0 PG A:GTP703 3.3 27.0 1.0 PB A:GTP703 3.3 27.7 1.0 CB A:THR291 3.3 31.0 1.0 O3B A:GTP703 3.5 27.1 1.0 OD2 A:ASP310 3.7 28.5 1.0 O2G A:GTP703 3.8 26.1 1.0 O2A A:GTP703 4.0 29.3 1.0 O A:HOH1065 4.1 29.2 1.0 N A:THR291 4.1 28.7 1.0 CA A:THR291 4.3 29.3 1.0 NH1 A:ARG405 4.3 28.3 1.0 O1B A:GTP703 4.4 27.3 1.0 O A:ASP310 4.4 27.0 1.0 CG2 A:THR291 4.4 30.9 1.0 O3A A:GTP703 4.4 27.7 1.0 CA A:GLY334 4.5 28.6 1.0 CG A:ASP310 4.5 27.8 1.0 O1G A:GTP703 4.6 23.8 1.0 O A:HOH889 4.6 34.0 1.0 N A:VAL335 4.6 28.6 1.0 OD1 A:ASP311 4.7 23.9 1.0 PA A:GTP703 4.8 29.6 1.0 O A:PHE333 4.8 27.5 1.0 O A:HOH1121 4.9 27.1 1.0 CB A:LYS290 5.0 26.8 1.0

Manganese binding site 2 out of 2 in the The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of The Structure of Rat Cytosolic Pepck Variant E89D in Complex with Gtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn702 b:24.9 occ:1.00 O A:HOH949 1.9 27.1 1.0 OD1 A:ASP311 2.0 23.9 1.0 O2G A:GTP703 2.2 26.1 1.0 O A:HOH1121 2.2 27.1 1.0 NZ A:LYS244 2.3 25.1 1.0 NE2 A:HIS264 2.3 24.1 1.0 CG A:ASP311 3.0 26.7 1.0 CD2 A:HIS264 3.2 23.7 1.0 OD2 A:ASP311 3.3 25.7 1.0 CE1 A:HIS264 3.3 23.2 1.0 PG A:GTP703 3.3 27.0 1.0 CE A:LYS244 3.4 25.7 1.0 O1G A:GTP703 3.7 23.8 1.0 NZ A:LYS290 4.0 26.1 1.0 O3G A:GTP703 4.0 28.1 1.0 O A:HOH961 4.2 26.0 1.0 CE A:LYS290 4.3 26.3 1.0 O A:HOH1065 4.3 29.2 1.0 CG A:HIS264 4.4 23.0 1.0 ND1 A:HIS264 4.4 22.2 1.0 CB A:ASP311 4.4 25.4 1.0 O3B A:GTP703 4.6 27.1 1.0 O A:HOH822 4.6 33.1 1.0 CD A:LYS244 4.7 25.8 1.0 O A:HOH1302 4.9 41.6 1.0

T.A.Johnson, M.J.Mcleod, T.Holyoak. Utilization of Substrate Intrinsic Binding Energy For Conformational Change and Catalytic Function in Phosphoenolpyruvate Carboxykinase. Biochemistry V. 55 575 2016.
ISSN: ISSN 1520-4995
PubMed: 26709450
DOI: 10.1021/ACS.BIOCHEM.5B01215