Zinc in PDB 2zc0: Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase

All present enzymatic activity of Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase:
2.6.1.44;

The structure of Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase, PDB code: 2zc0 was solved by H.Sakuraba, K.Yoneda, H.Tsuge, T.Ohshima, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.40 / 2.30
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	77.694, 112.519, 207.287, 90.00, 90.00, 90.00
R / Rfree (%)	23.6 / 26.1

The binding sites of Zinc atom in the Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase (pdb code 2zc0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase, PDB code: 2zc0:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn408 b:46.5 occ:1.00 N3 A:IMD410 2.0 44.4 1.0 OE2 A:GLU140 2.0 32.3 1.0 O A:HOH413 2.4 22.1 1.0 CD A:GLU140 2.8 31.0 1.0 C2 A:IMD410 2.8 44.4 1.0 OE1 A:GLU140 2.9 27.2 1.0 C4 A:IMD410 3.1 44.6 1.0 O A:HOH462 3.9 29.6 1.0 N1 A:IMD410 4.0 45.6 1.0 C5 A:IMD410 4.2 44.5 1.0 CG A:GLU140 4.2 29.5 1.0 CE A:LYS15 4.6 36.4 1.0 CD1 A:ILE146 4.7 40.8 1.0 NZ A:LYS15 4.9 32.8 1.0 CB A:ILE146 4.9 34.9 1.0

Zinc binding site 2 out of 4 in the Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn408 b:38.6 occ:1.00 N3 B:IMD410 1.9 44.6 1.0 OE2 B:GLU140 2.1 31.9 1.0 O B:HOH463 2.3 19.5 1.0 O B:HOH514 2.3 40.1 1.0 C2 B:IMD410 2.7 46.4 1.0 CD B:GLU140 2.9 27.8 1.0 OE1 B:GLU140 3.0 27.7 1.0 C4 B:IMD410 3.1 46.6 1.0 O B:HOH490 3.8 34.1 1.0 N1 B:IMD410 3.9 46.0 1.0 C5 B:IMD410 4.1 45.8 1.0 CG B:GLU140 4.3 27.3 1.0 CB B:ILE146 4.8 26.6 1.0 CE B:LYS15 4.8 35.6 1.0 CG1 B:ILE146 4.9 23.7 1.0

Zinc binding site 3 out of 4 in the Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn408 b:42.4 occ:1.00 OE2 C:GLU140 2.0 32.7 1.0 N3 C:IMD410 2.0 52.6 1.0 O C:HOH434 2.2 40.8 1.0 O C:HOH468 2.3 22.9 1.0 CD C:GLU140 2.7 31.0 1.0 OE1 C:GLU140 2.8 28.8 1.0 C2 C:IMD410 2.8 52.0 1.0 C4 C:IMD410 3.2 52.1 1.0 O C:HOH426 3.7 28.4 1.0 N1 C:IMD410 4.0 52.8 1.0 C5 C:IMD410 4.2 53.7 1.0 CG C:GLU140 4.2 32.5 1.0 CE C:LYS15 4.7 39.9 1.0 NZ C:LYS15 4.8 31.5 1.0 CB C:ILE146 4.9 34.2 1.0

Zinc binding site 4 out of 4 in the Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of An Archaeal Alanine:Glyoxylate Aminotransferase within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn408 b:45.1 occ:1.00 N3 D:IMD410 2.0 52.4 1.0 OE2 D:GLU140 2.0 35.2 1.0 O D:HOH471 2.3 46.0 1.0 O D:HOH482 2.4 26.7 1.0 C2 D:IMD410 2.8 51.2 1.0 CD D:GLU140 2.9 31.3 1.0 C4 D:IMD410 3.0 51.8 1.0 OE1 D:GLU140 3.1 30.2 1.0 O D:HOH415 3.9 26.2 1.0 N1 D:IMD410 4.0 51.4 1.0 C5 D:IMD410 4.1 53.0 1.0 CG D:GLU140 4.3 28.9 1.0 CB D:ILE146 4.8 28.3 1.0 CG1 D:ILE146 4.8 28.1 1.0 CE D:LYS15 4.8 30.5 1.0 NZ D:LYS15 5.0 28.6 1.0

H.Sakuraba, K.Yoneda, K.Takeuchi, H.Tsuge, N.Katunuma, T.Ohshima. Structure of An Archaeal Alanine:Glyoxylate Aminotransferase Acta Crystallogr.,Sect.D V. 64 696 2008.
ISSN: ISSN 0907-4449
PubMed: 18560158
DOI: 10.1107/S0907444908006732