Cobalt in PDB 4q0v: Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose

The structure of Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose, PDB code: 4q0v was solved by H.Yoshida, A.Yoshihara, M.Teraoka, K.Izumori, S.Kamitori, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	21.77 / 1.98
Space group	F 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	95.850, 107.350, 118.180, 90.00, 90.00, 90.00
R / Rfree (%)	20.3 / 24.3

The binding sites of Cobalt atom in the Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose (pdb code 4q0v). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 2 binding sites of Cobalt where determined in the Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose, PDB code: 4q0v:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in the Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose within 5.0Å range: probe atom residue distance (Å) B Occ A:Co501 b:26.2 occ:1.00 OE2 A:GLU113 1.9 20.2 1.0 O1 A:QDK502 2.1 28.3 1.0 NE2 A:HIS108 2.1 21.7 1.0 NE2 A:HIS188 2.2 18.2 1.0 O2 A:QDK502 2.2 33.0 1.0 NE2 A:HIS106 2.3 19.0 1.0 CD A:GLU113 2.9 20.1 1.0 CE1 A:HIS188 2.9 18.4 1.0 C2 A:QDK502 2.9 36.2 1.0 CD2 A:HIS108 3.0 20.3 1.0 C1 A:QDK502 3.0 32.6 1.0 OE1 A:GLU113 3.1 23.2 1.0 CE1 A:HIS106 3.2 23.6 1.0 CE1 A:HIS108 3.2 20.1 1.0 CD2 A:HIS106 3.2 24.2 1.0 CD2 A:HIS188 3.3 17.9 1.0 ND1 A:HIS188 4.1 19.6 1.0 CG A:HIS108 4.2 20.0 1.0 CG A:GLU113 4.2 22.8 1.0 ND1 A:HIS108 4.3 21.2 1.0 ND1 A:HIS106 4.3 23.2 1.0 CG A:HIS188 4.4 20.5 1.0 CG A:HIS106 4.4 23.1 1.0 NZ A:LYS111 4.4 23.7 1.0 C3 A:QDK502 4.4 40.8 1.0 CE A:LYS111 4.5 23.8 1.0 O4 A:QDK502 4.7 51.1 1.0 O3 A:QDK502 4.9 45.5 1.0 C4 A:QDK502 5.0 47.5 1.0 OH A:TYR115 5.0 24.9 1.0

Cobalt binding site 2 out of 2 in the Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribulose within 5.0Å range: probe atom residue distance (Å) B Occ A:Co509 b:38.6 occ:1.00 CO A:NCO509 0.0 38.6 1.0 N5 A:NCO509 1.8 39.7 1.0 N6 A:NCO509 1.8 40.2 1.0 N1 A:NCO509 1.8 40.6 1.0 N4 A:NCO509 1.8 41.0 1.0 N2 A:NCO509 1.8 41.7 1.0 N3 A:NCO509 1.8 39.8 1.0 O A:PHE234 3.8 37.5 1.0 OD1 A:ASP237 3.8 54.1 1.0 OD1 A:ASP233 4.0 41.7 1.0 OD2 A:ASP237 4.0 52.7 1.0 CG A:ASP237 4.2 51.4 1.0 O A:VAL235 4.4 40.6 1.0 ND2 A:ASN240 4.6 57.2 1.0 C A:VAL235 4.9 39.8 1.0 C A:PHE234 4.9 37.1 1.0

H.Yoshida, A.Yoshihara, M.Teraoka, Y.Terami, G.Takata, K.Izumori, S.Kamitori. X-Ray Structure of A Novel L-Ribose Isomerase Acting on A Non-Natural Sugar L-Ribose As Its Ideal Substrate Febs J. 2014.
ISSN: ISSN 1742-464X
PubMed: 24846739
DOI: 10.1111/FEBS.12850