Sodium in PDB 8g8v: Gtp Cyclohydrolase-Ib with Sodium

All present enzymatic activity of Gtp Cyclohydrolase-Ib with Sodium:
3.5.4.16;

The structure of Gtp Cyclohydrolase-Ib with Sodium, PDB code: 8g8v was solved by K.L.Mcwhorter, R.Jhunjhunwala, K.M.Davis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.08 / 2.03
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	116.499, 116.499, 70.806, 90, 90, 120
R / Rfree (%)	19.9 / 22.8

The binding sites of Sodium atom in the Gtp Cyclohydrolase-Ib with Sodium (pdb code 8g8v). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Gtp Cyclohydrolase-Ib with Sodium, PDB code: 8g8v:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Gtp Cyclohydrolase-Ib with Sodium


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Gtp Cyclohydrolase-Ib with Sodium within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:35.9 occ:1.00 NE2 A:HIS166 1.9 56.7 1.0 SG A:CSD154 2.2 44.5 1.0 CD2 A:HIS166 2.5 52.3 1.0 CB A:CSD154 3.0 36.5 1.0 CE1 A:HIS166 3.2 47.7 1.0 OD2 A:CSD154 3.2 56.3 1.0 OD1 A:CSD154 3.2 53.6 1.0 CG A:HIS166 3.8 47.6 1.0 ND1 A:HIS166 4.0 51.4 1.0 CD1 A:ILE252 4.3 47.4 1.0 CB A:SER157 4.4 34.5 1.0 N A:SER157 4.5 38.0 1.0 CA A:CSD154 4.5 35.8 1.0 OE2 A:GLU250 4.7 53.6 1.0 CB A:SNC156 4.9 44.8 1.0 CA A:SER157 5.0 37.4 1.0

Sodium binding site 2 out of 2 in the Gtp Cyclohydrolase-Ib with Sodium


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Gtp Cyclohydrolase-Ib with Sodium within 5.0Å range: probe atom residue distance (Å) B Occ B:Na301 b:30.9 occ:1.00 NE2 B:HIS166 1.9 55.3 1.0 SG B:CSD154 2.2 39.7 1.0 CD2 B:HIS166 2.5 49.4 1.0 CB B:CSD154 3.1 40.6 1.0 CE1 B:HIS166 3.1 46.0 1.0 OD1 B:CSD154 3.2 57.6 1.0 OD2 B:CSD154 3.3 54.7 1.0 CG B:HIS166 3.8 36.5 1.0 ND1 B:HIS166 4.0 47.8 1.0 CD1 B:ILE252 4.1 36.9 1.0 CB B:SER157 4.2 37.7 1.0 N B:SER157 4.5 35.2 1.0 CA B:CSD154 4.6 31.9 1.0 CA B:SER157 4.9 33.9 1.0

Y.Zhang, K.L.Mcwhorter, P.Rosen, J.Klaus, E.Gallant, C.Y.Amaya Lopez, R.Jhunjhunwala, J.Chandler, K.M.Davis, M.R.Seyedsayamdost. Combatting Melioidosis with Chemical Synthetic Lethality To Be Published.