SMTL ID : 8dti.1

Cryo-EM structure of Arabidopsis SPY in complex with GDP-fucose

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x GFB: GUANOSINE-5'-DIPHOSPHATE-BETA-L-FUCOPYRANOSE(Non-covalent)

GFB.1: 16 residues within 4Å: Chain A: S.496, V.497, I.592, P.595, N.662, K.665, K.689, L.721, I.722, L.723, H.728, Y.744, T.747, T.748, T.749, E.752 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:V.497, A:I.592 Hydrogen bonds: A:S.496, A:F.660, A:N.662, A:K.665, A:K.665, A:K.689, A:I.722, A:L.723, A:Y.744, A:T.748, A:E.752 Salt bridges: A:K.665, A:K.665 pi-Stacking: A:H.728, A:H.728 GFB.2: 16 residues within 4Å: Chain B: S.496, V.497, I.592, P.595, N.662, K.665, K.689, L.721, I.722, L.723, H.728, Y.744, T.747, T.748, T.749, E.752 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:V.497, B:I.592 Hydrogen bonds: B:S.496, B:F.660, B:N.662, B:K.665, B:K.665, B:K.689, B:I.722, B:L.723, B:Y.744, B:T.748, B:E.752 Salt bridges: B:K.665, B:K.665 pi-Stacking: B:H.728, B:H.728

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, S. et al., Cryo-EM structure of the full length Arabidopsis SPY with complete TPRs. Nat Commun (2023)

Release Date

2023-03-08

Peptides

Probable UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase SPINDLY: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Probable UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase SPINDLY

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