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Zinc in PDB 3ze3: Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7

Enzymatic activity of Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7

All present enzymatic activity of Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7:
2.7.1.107;

Protein crystallography data

The structure of Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7, PDB code: 3ze3 was solved by D.Li, V.E.Pye, J.A.Lyons, L.Vogeley, D.Aragao, M.Caffrey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.89 / 2.05
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 75.060, 91.540, 143.650, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 21.7

Other elements in 3ze3:

The structure of Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7 also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7 (pdb code 3ze3). 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 Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7, PDB code: 3ze3:

Zinc binding site 1 out of 1 in 3ze3

Go back to Zinc Binding Sites List in 3ze3
Zinc binding site 1 out of 1 in the Crystal Structure of the Integral Membrane Diacylglycerol Kinase - DELTA7


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 the Integral Membrane Diacylglycerol Kinase - DELTA7 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1122

b:30.2
occ:0.54
 OXT D:ACT1124 2.1 52.6 1.0
OE1 D:GLU76 2.1 45.6 1.0
OE1 D:GLU28 2.3 57.9 1.0
OA2 D:FLC1123 2.4 79.9 1.0
OE2 D:GLU28 2.6 61.4 1.0
CD D:GLU28 2.7 56.3 1.0
OE2 D:GLU76 2.7 46.2 1.0
CD D:GLU76 2.7 46.6 1.0
C D:ACT1124 3.0 48.7 1.0
O D:ACT1124 3.3 58.2 1.0
CAC D:FLC1123 3.5 86.8 1.0
O D:HOH2047 3.6 63.5 1.0
O D:HOH2013 3.7 57.9 1.0
OA1 D:FLC1123 3.9 90.0 1.0
O D:HOH2012 4.0 51.4 1.0
CG D:GLU28 4.2 40.8 1.0
CG D:GLU76 4.2 41.5 1.0
O D:HOH2014 4.2 32.9 1.0
CH3 D:ACT1124 4.4 37.0 1.0
CA D:FLC1123 4.8 89.6 1.0
CB D:GLU28 4.9 30.7 1.0
CB D:GLU76 4.9 30.6 1.0

Reference:

D.Li, J.A.Lyons, V.E.Pye, L.Vogeley, D.Aragao, C.P.Kenyon, S.T.A.Shah, C.Doherty, M.Aherne, M.Caffrey. Crystal Structure of the Integral Membrane Diacylglycerol Kinase. Nature V. 497 521 2013.
ISSN: ISSN 0028-0836
PubMed: 23676677
DOI: 10.1038/NATURE12179
Page generated: Wed Aug 20 15:28:42 2025

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