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Zinc in PDB 5dwk: Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad

Enzymatic activity of Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad

All present enzymatic activity of Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad:
2.7.1.107;

Protein crystallography data

The structure of Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad, PDB code: 5dwk was solved by T.Weinert, V.Olieric, A.D.Finke, D.Li, M.Caffrey, M.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.79 / 2.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 75.290, 91.570, 143.720, 90.00, 90.00, 90.00
R / Rfree (%) 20.1 / 24.5

Other elements in 5dwk:

The structure of Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad also contains other interesting chemical elements:

Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad (pdb code 5dwk). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad, PDB code: 5dwk:

Zinc binding site 1 out of 1 in 5dwk

Go back to Zinc Binding Sites List in 5dwk
Zinc binding site 1 out of 1 in the Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Diacylglycerol Kinase Solved By Multi Crystal Multi Orientation Native Sad within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn205

b:70.4
occ:1.00
 OE1 C:GLU76 2.2 66.1 1.0
OE1 C:GLU28 2.3 74.7 1.0
O C:ACT207 2.6 0.9 1.0
OE2 C:GLU76 2.8 66.3 1.0
CD C:GLU76 2.8 61.9 1.0
CD C:GLU28 2.9 66.8 1.0
OE2 C:GLU28 2.9 87.5 1.0
O3 C:CIT206 3.1 0.0 1.0
C C:ACT207 3.7 0.0 1.0
O4 C:CIT206 3.9 0.1 1.0
C5 C:CIT206 3.9 0.8 1.0
CH3 C:ACT207 4.2 0.0 1.0
CG C:GLU28 4.3 56.2 1.0
CG C:GLU76 4.3 58.8 1.0
OXT C:ACT207 4.7 0.4 1.0
CB C:GLU76 4.9 41.9 1.0
CB C:GLU28 5.0 55.9 1.0

Reference:

V.Olieric, T.Weinert, A.D.Finke, C.Anders, D.Li, N.Olieric, C.N.Borca, M.O.Steinmetz, M.Caffrey, M.Jinek, M.Wang. Data-Collection Strategy For Challenging Native Sad Phasing. Acta Crystallogr D Struct V. 72 421 2016BIOL.
ISSN: ISSN 2059-7983
PubMed: 26960129
DOI: 10.1107/S2059798315024110
Page generated: Sun Oct 27 14:55:48 2024

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