SMTL ID : 7fha.1

Crystal structure of the ATP sulfurylase domain of human PAPSS2 in complex with APS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x ADX: ADENOSINE-5'-PHOSPHOSULFATE(Non-covalent)

ADX.1: 16 residues within 4Å: Chain A: F.187, Q.188, L.189, R.190, N.191, H.197, L.200, M.264, V.289, G.290, R.291, P.293, A.294, R.330, V.331, A.332 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:Q.188, A:R.190, A:N.191, A:N.191, A:G.290, A:R.291, A:A.294, A:A.332, A:A.332 Water bridges: A:H.275, A:I.288, A:I.288, A:R.291, A:R.291, A:R.291, A:R.291 Salt bridges: A:R.190, A:R.190, A:H.197 ADX.6: 16 residues within 4Å: Chain B: F.187, Q.188, L.189, R.190, N.191, H.197, L.200, M.264, V.289, G.290, R.291, P.293, A.294, R.330, V.331, A.332 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:Q.188, B:R.190, B:N.191, B:N.191, B:H.197, B:I.288, B:G.290, B:R.291, B:A.294, B:A.332, B:A.332 Water bridges: B:H.275, B:H.275, B:R.291, B:R.291 Salt bridges: B:R.190, B:R.190, B:H.197 pi-Cation interactions: B:R.291

2 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.2: 7 residues within 4Å: Chain A: G.224, G.225, W.226, T.227, P.233, L.234, R.237 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:G.224, A:T.227, A:L.234, A:R.237 Water bridges: A:W.226, A:W.226, A:T.227, A:T.227, A:D.229, A:D.235 BGC.7: 7 residues within 4Å: Chain B: G.224, G.225, W.226, T.227, P.233, L.234, R.237 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:G.224, B:T.227, B:T.227, B:L.234, B:R.237 Water bridges: B:W.226, B:T.227, B:D.235 Salt bridges: B:K.30

2 x K: POTASSIUM ION(Non-covalent)

K.3: 4 residues within 4Å: Chain A: S.82, A.83, G.142, D.143 No protein-ligand interaction detected (PLIP) K.8: 4 residues within 4Å: Chain B: S.82, A.83, G.142, D.143 No protein-ligand interaction detected (PLIP)

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

SO4.4: 3 residues within 4Å: Chain A: R.211, Y.213 Ligands: SO4.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.213 Salt bridges: A:R.211 SO4.5: 4 residues within 4Å: Chain A: R.211, G.212, Y.213 Ligands: SO4.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.212

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, P. et al., Structural basis for the substrate recognition mechanism of ATP-sulfurylase domain of human PAPS synthase 2. Biochem.Biophys.Res.Commun. (2022)

Release Date

2021-12-01

Peptides

Bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 2: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 2

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