SMTL ID : 5iit.3 (3 other biounits)

Structure of SPX domain of the yeast inorganic polyphophate polymerase Vtc4 crystallized by carrier-driven crystallization in fusion with the macro domain of human histone macroH2A1.1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

monomer

Ligands

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.1: 14 residues within 4Å: Chain A: P.216, T.217, N.218, Y.222, S.276, S.311, I.312, G.313, S.314, G.315, R.316, N.317 Ligands: SO4.2, EDO.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.276, A:G.313, A:G.315, A:N.317

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 5 residues within 4Å: Chain A: E.226, G.315, R.316 Ligands: MES.1, EDO.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.226, A:R.316 Salt bridges: A:R.316

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 10 residues within 4Å: Chain A: H.215, P.216, T.217, Y.222, G.225, E.226, V.227, G.228 Ligands: MES.1, SO4.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.222, A:V.227, A:G.228 EDO.4: 4 residues within 4Å: Chain A: Q.42, E.45, T.46, F.140 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.46, A:T.46, A:T.46

1 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 4 residues within 4Å: Chain A: G.263, L.266, A.268, K.269 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.263, A:L.266, A:A.268, H2O.2

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wild, R. et al., Control of eukaryotic phosphate homeostasis by inositol polyphosphate sensor domains. Science (2016)

Release Date

2016-04-27

Peptides

Vacuolar transporter chaperone 4,Core histone macro-H2A.1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Vacuolar transporter chaperone 4,Core histone macro-H2A.1

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