SMTL ID : 8jun.1

Cryo-EM structure of SIDT1 E555Q mutant

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: S.559, H.563, D.574, H.791, H.795 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.563, A:D.574, A:H.791, A:H.795 ZN.3: 5 residues within 4Å: Chain B: S.559, H.563, D.574, H.791, H.795 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.563, B:D.574, B:H.791, B:H.795

2 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)

POV.2: 18 residues within 4Å: Chain A: L.692, V.693, S.696, F.697, F.700, Y.704, P.706, D.708, S.711, Y.712, G.715, C.719, L.722, L.723, A.726, F.761, F.762, N.764 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.692, A:V.693, A:F.697, A:F.697, A:F.700, A:F.700, A:Y.712, A:L.722, A:L.723, A:A.726, A:F.762, A:F.762 Hydrogen bonds: A:N.764 Salt bridges: A:D.708 POV.4: 18 residues within 4Å: Chain B: L.692, S.696, F.697, F.700, Y.704, P.706, D.708, S.711, Y.712, G.715, C.719, L.722, L.723, A.726, L.758, F.761, F.762, N.764 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:L.692, B:F.697, B:F.700, B:F.700, B:L.722, B:L.723, B:A.726, B:L.758, B:F.762, B:F.762 Hydrogen bonds: B:N.764 Salt bridges: B:D.708 pi-Cation interactions: B:F.761

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sun, C.R. et al., Human SIDT1 mediates dsRNA uptake via its phospholipase activity. Cell Res. (2024)

Release Date

2023-11-15

Peptides

SID1 transmembrane family member 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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SID1 transmembrane family member 1