SMTL ID : 8i1o.1 (1 other biounit)

Crystal structure of APSK2 domain from human PAPSS2 in complex with exogenous APS and ADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 16 residues within 4Å: Chain A: L.35, S.36, G.37, A.38, G.39, K.40, T.41, T.42, I.43, R.143, V.145, T.179, S.182, T.183, V.184, C.187 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.37, A:A.38, A:G.39, A:K.40, A:T.41, A:T.42, A:T.42, A:S.182 Water bridges: A:K.40, A:K.40, A:T.41, A:T.41 Salt bridges: A:K.40 pi-Cation interactions: A:R.143 ADP.3: 16 residues within 4Å: Chain B: L.35, S.36, G.37, A.38, G.39, K.40, T.41, T.42, I.43, R.143, V.145, T.179, S.182, T.183, V.184, C.187 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:G.37, B:A.38, B:G.39, B:G.39, B:K.40, B:T.41, B:T.41, B:T.42, B:T.42, B:T.42, B:S.182 Water bridges: B:K.40, B:K.40 Salt bridges: B:K.40 pi-Cation interactions: B:R.143

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

ADX.2: 17 residues within 4Å: Chain A: S.36, R.67, F.76, R.81, N.84, I.85, F.106, I.107, S.108, P.109, K.146, L.148, I.157, K.158, G.159, F.160, T.161 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:S.36, A:S.36, A:R.81, A:R.81, A:N.84, A:I.107, A:S.108, A:K.146, A:G.159, A:T.161, A:T.161 Salt bridges: A:R.67, A:R.67, A:R.81 pi-Stacking: A:F.76, A:F.76 ADX.4: 15 residues within 4Å: Chain B: R.67, F.76, R.81, N.84, I.85, F.106, I.107, S.108, P.109, L.148, I.157, K.158, G.159, F.160, T.161 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.81, B:N.84, B:I.107, B:S.108, B:G.159, B:T.161, B:T.161 Salt bridges: B:R.67, B:R.67, B:R.81 pi-Stacking: B:F.76

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, L. et al., Redox switching mechanism of the adenosine 5'-phosphosulfate kinase domain (APSK2) of human PAPS synthase 2. Structure (2023)

Release Date

2023-06-28

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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