Cobalt in PDB 4q0u: Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribose

The structure of Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribose, PDB code: 4q0u 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)	61.45 / 1.98
Space group	F 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	96.730, 107.060, 118.890, 90.00, 90.00, 90.00
R / Rfree (%)	22.1 / 23.7

The binding sites of Cobalt atom in the Crystal Structure of Acinetobacter Sp. DL28 L-Ribose Isomerase Mutant E204Q in Complex with L-Ribose (pdb code 4q0u). 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-Ribose, PDB code: 4q0u:
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-Ribose


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-Ribose within 5.0Å range: probe atom residue distance (Å) B Occ A:Co501 b:28.4 occ:1.00 OE2 A:GLU113 1.9 21.8 1.0 NE2 A:HIS108 2.1 19.9 1.0 O4 A:ROR502 2.2 30.4 1.0 NE2 A:HIS106 2.2 25.7 1.0 O5 A:ROR502 2.3 27.2 1.0 NE2 A:HIS188 2.3 20.0 1.0 C5 A:ROR502 2.9 34.6 1.0 C4 A:ROR502 2.9 36.4 1.0 CD A:GLU113 2.9 21.1 1.0 CD2 A:HIS108 3.0 21.3 1.0 CE1 A:HIS188 3.1 20.8 1.0 CD2 A:HIS106 3.2 26.7 1.0 CE1 A:HIS108 3.2 21.2 1.0 CE1 A:HIS106 3.2 27.0 1.0 OE1 A:GLU113 3.3 21.1 1.0 CD2 A:HIS188 3.5 19.4 1.0 CG A:HIS108 4.2 22.5 1.0 ND1 A:HIS108 4.2 22.1 1.0 NZ A:LYS111 4.3 23.6 1.0 CG A:GLU113 4.3 23.8 1.0 ND1 A:HIS188 4.3 19.1 1.0 ND1 A:HIS106 4.3 26.9 1.0 CG A:HIS106 4.3 25.3 1.0 C3 A:ROR502 4.3 40.9 1.0 CE A:LYS111 4.4 22.7 1.0 CG A:HIS188 4.5 20.5 1.0 O2 A:ROR502 4.6 48.5 1.0 C1 A:ROR502 4.7 48.4 1.0 C2 A:ROR502 4.8 46.2 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-Ribose


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-Ribose within 5.0Å range: probe atom residue distance (Å) B Occ A:Co507 b:48.4 occ:1.00 CO A:NCO507 0.0 48.4 1.0 N1 A:NCO507 1.8 48.5 1.0 N4 A:NCO507 1.8 49.5 1.0 N5 A:NCO507 1.8 50.0 1.0 N6 A:NCO507 1.8 49.8 1.0 N2 A:NCO507 1.8 50.3 1.0 N3 A:NCO507 1.8 49.6 1.0 OD2 A:ASP237 3.9 49.4 1.0 O A:PHE234 4.1 35.6 1.0 OD1 A:ASP233 4.3 42.2 1.0 CG A:ASP237 4.5 48.3 1.0 OD1 A:ASP237 4.5 49.7 1.0 O A:VAL235 4.7 36.5 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