5BYB: Crystal structure of the catalytic domain of human diphosphoinositol pentakisphosphate kinase 2 (PPIP5K2) in complex with ADP and 1,5-(PA)2-IP4

PDB ID: 5BYBDownload
MMDB ID: 131179
PDB Deposition Date: 2015/6/10
Updated in MMDB: 2017/12
Experimental Method:
x-ray diffraction
Resolution: 2.3  Å
Source Organism:
Similar Structures:
Biological Unit for 5BYB: monomeric; determined by author and by software (PISA)
Molecular Components in 5BYB
Label Count Molecule
Protein (1 molecule)
1
Inositol Hexakisphosphate and Diphosphoinositol-pentakisphosphate Kinase 2
(Gene symbol: PPIP5K2)
Molecule annotation
Chemicals and Non-standard biopolymers (12 molecules)
1
1
ADENOSINE-5'-DIPHOSPHATEADENOSINE-5'-DIPHOSPHATE
2
1
{[(1R,3S,4S,5R,6S)-2,4,5,6-tetrakis(phosphonooxy)cyclohexane-1,3-diyl]bis[oxy(2-oxoethane-2,1-diyl)]}bis(phosphonic acid){[(1R,3S,4S,5R,6S)-2,4,5,6-tetrakis(phosphonooxy)cyclohexane-1,3-diyl]bis[oxy(2-oxoethane-2,1-diyl)]}bis(phosphonic acid)
3
3
MAGNESIUM IONMAGNESIUM ION
4
3
ACETATE IONACETATE ION
5
4
1,2-ETHANEDIOL1,2-ETHANEDIOL
* Click molecule labels to explore molecular sequence information.
Citing MMDB
Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH. " MMDB and VAST+: tracking structural similarities between macromolecular complexes. Nucleic Acids Res. 2014 Jan; 42(Database issue):D297-303