Sodium in PDB 3in1: Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli

The structure of Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli, PDB code: 3in1 was solved by L.Satyanarayana, S.K.Burley, S.Swaminathan, New York Sgxresearch Center For Structural Genomics (Nysgxrc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.29 / 2.15
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	75.577, 88.301, 116.608, 90.00, 90.00, 90.00
R / Rfree (%)	22.6 / 26.6

The binding sites of Sodium atom in the Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli (pdb code 3in1). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli, PDB code: 3in1:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli within 5.0Å range: probe atom residue distance (Å) B Occ A:Na411 b:63.3 occ:1.00 O2A A:ADP510 2.7 45.1 1.0 N A:GLY259 2.8 24.2 1.0 O A:HOH362 3.5 37.8 1.0 O A:THR255 3.6 41.1 1.0 O A:HOH417 3.6 50.3 1.0 CB A:ALA258 3.6 23.5 1.0 CA A:GLY259 3.6 24.6 1.0 N A:ALA258 3.6 24.9 1.0 C A:ALA258 3.7 24.3 1.0 CA A:ALA258 3.8 25.1 1.0 PA A:ADP510 4.0 41.6 1.0 O2B A:ADP510 4.1 58.4 1.0 O5' A:ADP510 4.3 39.2 1.0 C A:GLY257 4.4 26.7 1.0 C5' A:ADP510 4.5 31.6 1.0 N A:GLY257 4.6 31.2 1.0 O3A A:ADP510 4.7 51.3 1.0 C A:THR255 4.8 41.4 1.0 O A:ALA258 4.8 23.3 1.0 C A:GLY259 4.9 25.0 1.0 CA A:GLY257 4.9 27.4 1.0 CB A:THR255 4.9 42.9 1.0 OG1 A:THR255 5.0 42.0 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli within 5.0Å range: probe atom residue distance (Å) B Occ B:Na411 b:62.7 occ:1.00 O2A B:ADP510 2.8 50.8 1.0 N B:GLY259 3.1 29.4 1.0 O2B B:ADP510 3.5 59.4 1.0 CA B:GLY259 3.7 27.7 1.0 O B:THR255 3.7 47.4 1.0 CB B:ALA258 3.8 30.1 1.0 PA B:ADP510 3.8 50.9 1.0 N B:ALA258 3.9 31.6 1.0 C B:ALA258 4.0 29.5 1.0 O5' B:ADP510 4.1 48.4 1.0 CA B:ALA258 4.1 31.0 1.0 O3A B:ADP510 4.2 54.2 1.0 PB B:ADP510 4.5 59.3 1.0 C5' B:ADP510 4.6 42.9 1.0 C B:GLY257 4.8 34.0 1.0 N B:GLY257 4.9 39.1 1.0 C B:THR255 4.9 48.0 1.0 O B:ALA258 5.0 27.6 1.0

L.Satyanarayana, S.K.Burley, S.Swaminathan. Crystal Structure of A Putative Ribokinase in Complex with Adp From E.Coli To Be Published.