Magnesium in PDB 4o4d: Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3

All present enzymatic activity of Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3:
2.7.4.21;

The structure of Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3, PDB code: 4o4d was solved by H.Wang, S.B.Shears, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.33 / 2.10
Space group	I 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	102.738, 102.738, 111.737, 90.00, 90.00, 90.00
R / Rfree (%)	17.3 / 22.7

The binding sites of Magnesium atom in the Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3 (pdb code 4o4d). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3, PDB code: 4o4d:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg401 b:40.6 occ:1.00 O1G A:ATP404 2.0 48.5 1.0 OD2 A:ASP231 2.1 28.7 1.0 O2A A:ATP404 2.1 38.3 1.0 O A:HOH604 2.3 42.9 1.0 O A:HOH595 2.3 30.7 1.0 O A:HOH605 2.3 41.8 1.0 PG A:ATP404 3.2 45.5 1.0 CG A:ASP231 3.2 26.5 1.0 O2G A:ATP404 3.4 37.6 1.0 CB A:ASP231 3.5 25.1 1.0 PA A:ATP404 3.6 35.5 1.0 MG A:MG402 3.8 41.3 1.0 O A:HOH617 3.9 45.5 1.0 O3B A:ATP404 3.9 43.8 1.0 O A:HOH661 3.9 59.9 1.0 O A:SER207 4.1 25.2 1.0 O2B A:ATP404 4.1 39.7 1.0 O3A A:ATP404 4.2 39.3 1.0 PB A:ATP404 4.3 41.4 1.0 OD1 A:ASP231 4.3 27.6 1.0 O3G A:ATP404 4.4 44.8 1.0 O A:HOH610 4.5 39.9 1.0 OG A:SER209 4.5 22.9 1.0 O5' A:ATP404 4.5 38.6 1.0 O1A A:ATP404 4.5 39.5 1.0 C5' A:ATP404 4.6 37.1 1.0 OD2 A:ASP99 4.8 35.2 1.0 NZ A:LYS101 4.8 35.9 1.0 O A:HOH618 4.9 48.2 1.0 CE A:LYS101 4.9 35.0 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of An Inositol Hexakisphosphate Kinase EHIP6KA in Complexed with Atp and Ins(1,4,5)P3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg402 b:41.3 occ:1.00 O2G A:ATP404 1.9 37.6 1.0 O2B A:ATP404 2.0 39.7 1.0 O A:HOH613 2.0 44.5 1.0 O A:HOH610 2.2 39.9 1.0 OD2 A:ASP231 2.2 28.7 1.0 OD1 A:ASP231 2.4 27.6 1.0 CG A:ASP231 2.6 26.5 1.0 PG A:ATP404 3.1 45.5 1.0 PB A:ATP404 3.2 41.4 1.0 O3B A:ATP404 3.5 43.8 1.0 O1G A:ATP404 3.7 48.5 1.0 MG A:MG401 3.8 40.6 1.0 O A:HOH605 4.0 41.8 1.0 CB A:ASP231 4.0 25.1 1.0 O2A A:ATP404 4.2 38.3 1.0 CB A:ALA233 4.2 25.4 1.0 O1B A:ATP404 4.3 41.1 1.0 O3A A:ATP404 4.3 39.3 1.0 O3G A:ATP404 4.4 44.8 1.0 NZ A:LYS38 4.4 32.8 1.0 O13 A:I3P403 4.4 95.5 1.0 O A:HOH588 4.5 28.8 1.0 PA A:ATP404 4.5 35.5 1.0 O A:HOH585 4.6 39.9 1.0 O11 A:I3P403 4.8 97.2 1.0 O1A A:ATP404 4.8 39.5 1.0 CA A:ASP231 4.9 23.1 1.0

H.Wang, E.F.Derose, R.E.London, S.B.Shears. IP6K Structure and the Molecular Determinants of Catalytic Specificity in An Inositol Phosphate Kinase Family. Nat Commun V. 5 4178 2014.
ISSN: ESSN 2041-1723
PubMed: 24956979
DOI: 10.1038/NCOMMS5178