Sodium in PDB 3kwm: Crystal Structure of Ribose-5-Isomerase A

All present enzymatic activity of Crystal Structure of Ribose-5-Isomerase A:
5.3.1.6;

The structure of Crystal Structure of Ribose-5-Isomerase A, PDB code: 3kwm was solved by M.Orlikowska, R.Rostankowski, C.Nakka, J.Hattne, S.Grimshaw, D.Borek, Z.Otwinowski, Center For Structural Genomics Of Infectious Diseases(Csgid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	38.68 / 2.32
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	182.360, 73.085, 75.303, 90.00, 90.00, 90.00
R / Rfree (%)	17 / 22.1

The binding sites of Sodium atom in the Crystal Structure of Ribose-5-Isomerase A (pdb code 3kwm). 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 Ribose-5-Isomerase A, PDB code: 3kwm:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of Ribose-5-Isomerase A


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 Ribose-5-Isomerase A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na225 b:10.6 occ:1.00 O A:HOH241 2.3 41.9 1.0 O D:HOH234 2.5 32.3 1.0 O D:VAL198 2.5 12.7 1.0 O A:VAL198 2.8 12.1 1.0 O A:VAL199 3.1 12.0 1.0 O D:VAL199 3.4 13.8 1.0 C D:VAL198 3.7 12.4 1.0 C A:VAL199 3.8 12.0 1.0 C A:VAL198 3.8 11.6 1.0 O A:HOH230 3.9 29.0 1.0 CA A:VAL199 3.9 11.7 1.0 C D:VAL199 4.0 13.7 1.0 CA D:VAL199 4.1 13.0 1.0 O D:HOH267 4.1 26.2 1.0 N D:VAL199 4.3 12.7 1.0 N A:VAL199 4.3 11.7 1.0 O D:ASN193 4.6 13.1 1.0 O A:ASN193 4.7 12.3 1.0 CA D:VAL198 4.8 12.1 1.0 N A:THR200 4.9 12.3 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of Ribose-5-Isomerase A


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 Ribose-5-Isomerase A within 5.0Å range: probe atom residue distance (Å) B Occ B:Na225 b:14.4 occ:1.00 O B:VAL198 2.7 14.5 1.0 O C:VAL198 2.7 10.7 1.0 O B:VAL199 3.0 15.4 1.0 O C:VAL199 3.1 10.6 1.0 C B:VAL198 3.8 14.6 1.0 C B:VAL199 3.8 15.3 1.0 C C:VAL198 3.8 10.6 1.0 C C:VAL199 3.9 10.8 1.0 CA B:VAL199 3.9 14.8 1.0 O C:HOH255 4.0 21.8 1.0 CA C:VAL199 4.0 10.7 1.0 O B:HOH231 4.1 22.4 1.0 N B:VAL199 4.3 15.0 1.0 N C:VAL199 4.4 11.0 1.0 O C:ASN193 4.8 9.9 1.0 O B:ASN193 4.9 13.2 1.0 N B:THR200 5.0 15.9 1.0 CA C:VAL198 5.0 10.2 1.0

M.Orlikowska, R.Rostankowski, C.Nakka, J.Hattne, S.Grimshaw, D.Borek, Z.Otwinowski, Center For Structural Genomics Of Infectious Diseases(Csgid). N/A N/A.