Cobalt in PDB 3l0s: Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas

All present enzymatic activity of Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas:
2.7.4.3;

The structure of Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas, PDB code: 3l0s was solved by A.Mukhopadhyay, J.Trincao, M.J.Romao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.46 / 2.00
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	131.430, 39.490, 94.200, 90.00, 109.31, 90.00
R / Rfree (%)	19 / 25.4

The binding sites of Cobalt atom in the Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas (pdb code 3l0s). 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 Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas, PDB code: 3l0s:
Jump to Cobalt binding site number: 1; 2;

Cobalt binding site 1 out of 2 in the Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas within 5.0Å range: probe atom residue distance (Å) B Occ A:Co224 b:13.2 occ:0.50 ND1 A:HIS135 2.0 12.9 1.0 SG A:CYS151 2.3 15.8 1.0 SG A:CYS129 2.3 17.1 1.0 SG A:CYS154 2.4 20.4 1.0 CE1 A:HIS135 2.9 12.9 1.0 CG A:HIS135 3.1 14.2 1.0 CB A:CYS129 3.3 17.6 1.0 CB A:CYS151 3.3 17.8 1.0 CB A:CYS154 3.5 19.5 1.0 CB A:HIS135 3.5 13.6 1.0 N A:CYS154 3.8 17.8 1.0 NE2 A:HIS135 4.0 16.7 1.0 CD2 A:HIS135 4.1 12.3 1.0 CA A:CYS154 4.2 18.5 1.0 CB A:VAL153 4.3 17.9 1.0 O A:ASN132 4.3 20.9 1.0 N A:GLY156 4.6 18.4 1.0 C A:VAL153 4.7 18.8 1.0 N A:ASN132 4.7 19.0 1.0 CB A:ASN131 4.7 17.2 1.0 CA A:CYS129 4.7 17.0 1.0 CA A:CYS151 4.7 18.3 1.0 C A:CYS154 4.7 17.3 1.0 N A:GLY155 4.8 17.4 1.0 CA A:VAL153 4.8 17.8 1.0 CB A:ASN132 4.8 20.6 1.0 N A:VAL153 4.9 18.5 1.0 CG1 A:VAL153 5.0 16.4 1.0

Cobalt binding site 2 out of 2 in the Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structures of Zinc, Cobalt and Iron Containing Adenylate Kinase From Gram-Negative Bacteria Desulfovibrio Gigas within 5.0Å range: probe atom residue distance (Å) B Occ C:Co224 b:16.2 occ:0.50 ND1 C:HIS135 1.9 16.3 1.0 SG C:CYS129 2.3 18.9 1.0 SG C:CYS151 2.3 17.7 1.0 SG C:CYS154 2.3 22.2 1.0 CE1 C:HIS135 2.8 20.8 1.0 CG C:HIS135 3.0 21.3 1.0 CB C:CYS151 3.1 18.2 1.0 CB C:CYS129 3.1 18.6 1.0 CB C:HIS135 3.4 19.1 1.0 CB C:CYS154 3.6 21.6 1.0 N C:CYS154 3.8 21.5 1.0 NE2 C:HIS135 3.9 19.8 1.0 CD2 C:HIS135 4.0 16.9 1.0 CA C:CYS154 4.2 21.4 1.0 CB C:VAL153 4.3 21.8 1.0 O C:ASN132 4.4 20.2 1.0 CA C:CYS129 4.6 18.2 1.0 CA C:CYS151 4.6 19.0 1.0 N C:GLY156 4.6 20.5 1.0 C C:VAL153 4.6 22.1 1.0 N C:ASN132 4.7 20.2 1.0 C C:CYS154 4.7 21.0 1.0 CB C:ASN131 4.8 21.2 1.0 CA C:VAL153 4.8 21.6 1.0 N C:GLY155 4.8 19.9 1.0 N C:VAL153 4.8 21.7 1.0 CB C:ASN132 4.9 20.7 1.0 CG1 C:VAL153 4.9 21.2 1.0 CA C:HIS135 4.9 19.6 1.0 ND2 C:ASN137 4.9 12.4 1.0

A.Mukhopadhyay, A.V.Kladova, S.A.Bursakov, O.Y.Gavel, J.J.Calvete, V.L.Shnyrov, I.Moura, J.J.G.Moura, M.J.Romao, J.Trincao. Crystal Structure of the Zinc-, Cobalt-, and Iron-Containing Adenylate Kinase From Desulfovibrio Gigas: A Novel Metal-Containing Adenylate Kinase From Gram-Negative Bacteria J.Biol.Inorg.Chem. V. 16 51 2011.
ISSN: ISSN 0949-8257
PubMed: 20821240
DOI: 10.1007/S00775-010-0700-8