Zinc in PDB 1lhr: Crystal Structure of Pyridoxal Kinase Complexed with Atp

All present enzymatic activity of Crystal Structure of Pyridoxal Kinase Complexed with Atp:
2.7.1.35;

The structure of Crystal Structure of Pyridoxal Kinase Complexed with Atp, PDB code: 1lhr was solved by D.C.Liang, T.Jiang, M.H.Li, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.60
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	59.000, 93.800, 128.800, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 22.2

The structure of Crystal Structure of Pyridoxal Kinase Complexed with Atp also contains other interesting chemical elements:

Potassium

(K)

2 atoms

The binding sites of Zinc atom in the Crystal Structure of Pyridoxal Kinase Complexed with Atp (pdb code 1lhr). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Pyridoxal Kinase Complexed with Atp, PDB code: 1lhr:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Pyridoxal Kinase Complexed with Atp


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 Pyridoxal Kinase Complexed with Atp within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn403 b:51.9 occ:1.00 O1B A:ATP401 2.5 61.3 1.0 O2G A:ATP401 2.5 65.6 1.0 PB A:ATP401 3.0 63.5 1.0 O2B A:ATP401 3.2 59.0 1.0 O3B A:ATP401 3.3 63.2 1.0 K A:K405 3.4 37.0 1.0 OE1 A:GLN119 3.4 61.0 1.0 PG A:ATP401 3.4 69.8 1.0 OD2 A:ASP113 3.7 32.7 1.0 CG2 A:VAL115 3.7 36.1 1.0 CD A:GLN119 3.8 58.7 1.0 NE2 A:GLN119 3.8 60.2 1.0 O3G A:ATP401 3.9 65.7 1.0 OD1 A:ASP113 3.9 30.7 1.0 OE2 A:GLU153 4.0 44.3 1.0 CG A:ASP113 4.3 31.8 1.0 OE1 A:GLU153 4.3 43.6 1.0 ND2 A:ASN150 4.4 31.1 1.0 O3A A:ATP401 4.4 61.1 1.0 CD A:GLU153 4.5 44.1 1.0 CB A:VAL115 4.7 37.8 1.0 CG1 A:VAL115 4.7 36.0 1.0 CA A:GLY234 4.7 20.2 1.0 O1G A:ATP401 4.8 66.9 1.0 CG A:GLN119 4.9 55.1 1.0 CA A:VAL115 4.9 37.6 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Pyridoxal Kinase Complexed with Atp


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 Pyridoxal Kinase Complexed with Atp within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn404 b:39.4 occ:1.00 O1B B:ATP402 2.4 48.3 1.0 O2G B:ATP402 2.5 54.4 1.0 PB B:ATP402 3.2 50.5 1.0 O3B B:ATP402 3.4 51.6 1.0 K B:K406 3.4 28.7 1.0 PG B:ATP402 3.5 54.2 1.0 OD2 B:ASP113 3.9 22.5 1.0 O2B B:ATP402 3.9 47.0 1.0 OD1 B:ASP113 4.0 23.0 1.0 O1G B:ATP402 4.0 54.7 1.0 OE2 B:GLU153 4.1 33.5 1.0 CG2 B:VAL115 4.1 24.5 1.0 CG1 B:VAL115 4.2 27.5 1.0 ND2 B:ASN150 4.2 23.9 1.0 CG B:ASP113 4.4 22.9 1.0 OE1 B:GLU153 4.5 35.2 1.0 CA B:GLY234 4.5 17.9 1.0 O3A B:ATP402 4.5 48.5 1.0 O B:HOH439 4.6 38.0 1.0 CB B:VAL115 4.6 28.3 1.0 CD B:GLU153 4.7 33.7 1.0 O3G B:ATP402 4.8 54.5 1.0 O B:HOH418 4.8 10.7 1.0 CA B:VAL115 4.9 29.2 1.0

M.H.Li, F.Kwok, W.R.Chang, C.K.Lau, J.P.Zhang, S.C.Lo, T.Jiang, D.C.Liang. Crystal Structure of Brain Pyridoxal Kinase, A Novel Member of the Ribokinase Superfamily J.Biol.Chem. V. 277 46385 2002.
ISSN: ISSN 0021-9258
PubMed: 12235162
DOI: 10.1074/JBC.M208600200