SMTL ID : 2pez.1

Crystal structrue of deletion mutant of APS-kinase domain of human PAPS-synthetase 1 in complex with cyclic PAPS and dADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.40 Å

Oligo State

homo-dimer

Ligands

1 x GGZ: (2S,3AR,4R,6R,6AR)-4-(6-AMINO-9H-PURIN-9-YL)-6-({[(R)-HYDROXY(SULFOOXY)PHOSPHORYL]OXY}METHYL)TETRAHYDROFURO[3,4-D][1,3,2]DIOXAPHOSPHOL-2-OL 2-OXIDE(Non-covalent)

GGZ.1: 15 residues within 4Å: Chain A: S.14, R.45, F.54, R.59, N.62, F.84, I.85, S.86, P.87, K.124, L.126, G.137, F.138, T.139 Ligands: DAT.2 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:R.59, A:R.59, A:N.62, A:I.85, A:S.86, A:G.137, A:T.139 Water bridges: A:S.14, A:G.15, A:R.45, A:S.83 Salt bridges: A:R.45, A:R.45, A:R.59, A:K.124 pi-Stacking: A:F.54

2 x DAT: 2'-DEOXYADENOSINE-5'-DIPHOSPHATE(Non-covalent)

DAT.2: 17 residues within 4Å: Chain A: L.13, S.14, G.15, A.16, G.17, K.18, T.19, T.20, V.21, R.121, V.123, T.157, C.160, D.161, V.162, C.165 Ligands: GGZ.1 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:G.15, A:A.16, A:G.17, A:K.18, A:T.19, A:T.19, A:T.19, A:T.20, A:T.20, A:C.160 Water bridges: A:K.18, A:K.18, A:T.19 Salt bridges: A:K.18 pi-Cation interactions: A:R.121 DAT.3: 16 residues within 4Å: Chain B: L.13, S.14, G.15, A.16, G.17, K.18, T.19, T.20, V.21, R.121, V.123, T.157, C.160, D.161, V.162, C.165 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:G.15, B:A.16, B:G.17, B:K.18, B:T.19, B:T.19, B:T.19, B:T.20, B:T.20, B:C.160 Water bridges: B:K.18, B:K.124 Salt bridges: B:K.18 pi-Cation interactions: B:R.121

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sekulic, N. et al., Structural mechanism for substrate inhibition of the adenosine 5'-phosphosulfate kinase domain of human 3'-phosphoadenosine 5'-phosphosulfate synthetase 1 and its ramifications for enzyme regulation. J.Biol.Chem. (2007)

Release Date

2007-05-29

Peptides

Bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthetase 1 (PAPS synthetase 1) (PAPSS 1) (Sulfurylase kinase 1) (SK1) (SK 1): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthetase 1 (PAPS synthetase 1) (PAPSS 1) (Sulfurylase kinase 1) (SK1) (SK 1)

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