5BYA image
Deposition Date 2015-06-10
Release Date 2015-07-22
Last Version Date 2023-09-27
Entry Detail
PDB ID:
5BYA
Keywords:
TRANSFERASE
Title:
Crystal structure of the catalytic domain of human diphosphoinositol pentakisphosphate kinase 2 (PPIP5K2) in complex with ADP and 1,5-(PCP)2-IP4
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
1.90 Å
R-Value Free:
0.19
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
P 21 21 21
5BYA validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Inositol hexakisphosphate and diphosphoinositol-pentakisphosphate kinase 2
Gene (Uniprot):PPIP5K2
Chain IDs:A
Chain Length:330
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O43314 Pfam ID:PF18086 EC:2.7.4.21
Ligand Molecules
4WZ
ACT
ADP
EDO
MG
Primary Citation
Synthetic tools for studying the chemical biology of InsP8.
Chem.Commun.(Camb.) 51 12605 12608 (2015)
PMID: 26153667 DOI: 10.1039/c5cc05017k

Abstact

To synthesise stabilised mimics of InsP8, the most phosphorylated inositol phosphate signalling molecule in Nature, we replaced its two diphosphate (PP) groups with either phosphonoacetate (PA) or methylenebisphosphonate (PCP) groups. Utility of the PA and PCP analogues was verified by structural and biochemical analyses of their interactions with enzymes of InsP8 metabolism.

Legend

Protein

Chemical

Disease

Primary Citation of related structures
5BYB