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Chlorine in PDB 6wo9: Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg

Enzymatic activity of Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg

All present enzymatic activity of Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg:
3.6.1.52;

Protein crystallography data

The structure of Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg, PDB code: 6wo9 was solved by G.N.Zong, H.C.Wang, S.B.Shears, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.73 / 2.00
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.291, 59.777, 62.463, 90, 90, 90
R / Rfree (%) 18.1 / 22.8

Other elements in 6wo9:

The structure of Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg also contains other interesting chemical elements:

Magnesium (Mg) 3 atoms

Chlorine Binding Sites:

The binding sites of Chlorine atom in the Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg (pdb code 6wo9). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total only one binding site of Chlorine was determined in the Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg, PDB code: 6wo9:

Chlorine binding site 1 out of 1 in 6wo9

Go back to Chlorine Binding Sites List in 6wo9
Chlorine binding site 1 out of 1 in the Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Diphosphoinositol Polyphosphate Phosphohydrolase 1 (DIPP1/NUDT3) in Complex with 1-Diphosphoinositol Pentakisphosphate (1-IP7) and Mg within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cl405

b:34.7
occ:1.00
 O A:HOH559 2.7 42.8 1.0
OG A:SER28 2.9 25.1 1.0
N A:GLU32 3.1 27.3 1.0
N A:SER28 3.2 23.5 1.0
OG A:SER30 3.3 36.7 0.5
N A:GLU33 3.3 23.4 1.0
N A:GLU31 3.6 30.1 1.0
O A:SER28 3.7 22.9 1.0
CB A:SER28 3.8 28.6 1.0
CB A:ARG27 3.8 27.6 1.0
N A:ARG27 3.9 20.7 1.0
CA A:GLU32 3.9 30.2 1.0
CA A:SER28 3.9 24.4 1.0
O A:GLU33 3.9 17.5 1.0
C A:GLU31 4.0 25.4 1.0
CA A:GLU31 4.0 29.5 1.0
CB A:GLU32 4.0 35.6 1.0
C A:ARG27 4.0 24.1 1.0
C A:GLU32 4.0 28.8 1.0
CA A:ARG27 4.1 23.7 1.0
C A:SER28 4.1 27.2 1.0
CB A:GLU33 4.2 26.6 1.0
CA A:GLU33 4.2 24.0 1.0
C A:SER30 4.3 33.8 1.0
CB A:SER30 4.5 34.0 0.5
CB A:SER30 4.5 32.0 0.5
C A:GLU33 4.5 20.6 1.0
N A:SER30 4.7 31.5 1.0
CA A:SER30 4.7 32.3 0.5
CA A:SER30 4.7 31.4 0.5
CB A:PHE26 4.8 19.7 1.0
C A:PHE26 4.8 18.7 1.0
CG A:GLU32 5.0 39.6 1.0
CG A:GLU33 5.0 34.1 1.0

Reference:

G.Zong, N.Jork, S.Hostachy, D.Fiedler, H.J.Jessen, S.B.Shears, H.Wang. New Structural Insights Reveal An Expanded Reaction Cycle For Inositol Pyrophosphate Hydrolysis By Human DIPP1. Faseb J. V. 35 21275 2021.
ISSN: ESSN 1530-6860
PubMed: 33475202
DOI: 10.1096/FJ.202001489R
Page generated: Sat Jul 12 21:19:59 2025

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