SMTL ID : 8j6m.1

SIDT1 protein

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

8 x CLR: CHOLESTEROL(Non-covalent)

CLR.1: 10 residues within 4Å: Chain A: Y.850, M.851, G.854, S.874, S.878, F.879, V.882 Ligands: CLR.2, CLR.3, CLR.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.850, A:V.882 CLR.2: 10 residues within 4Å: Chain A: G.854, M.857, Y.861, I.868, L.914, Q.917, I.918, F.988 Ligands: CLR.1, CLR.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:M.857, A:Y.861, A:I.868, A:L.914, A:F.988 CLR.3: 5 residues within 4Å: Chain A: S.874, S.878, M.984 Ligands: CLR.1, CLR.4 No protein-ligand interaction detected (PLIP) CLR.4: 9 residues within 4Å: Chain A: A.910, S.911, A.913, L.914, I.987, N.991 Ligands: CLR.1, CLR.2, CLR.3 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.910, A:A.913, A:L.914, A:L.914, A:I.987 CLR.9: 7 residues within 4Å: Chain B: A.910, A.913, L.914, N.991 Ligands: CLR.10, CLR.11, CLR.12 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:A.910, B:A.913, B:L.914 CLR.10: 10 residues within 4Å: Chain B: Y.873, S.874, A.877, S.878, V.881, V.882, F.903, M.984 Ligands: CLR.9, CLR.11 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.877, B:V.881, B:V.882, B:F.903 CLR.11: 12 residues within 4Å: Chain B: Y.850, M.851, G.854, I.868, A.870, S.874, A.875, S.878, F.879 Ligands: CLR.9, CLR.10, CLR.12 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.868, B:F.879 CLR.12: 8 residues within 4Å: Chain B: G.854, M.857, Y.861, I.868, L.914, Q.917 Ligands: CLR.9, CLR.11 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:M.857, B:Y.861, B:Y.861, B:I.868, B:L.914, B:Q.917, B:Q.917

2 x ZN: ZINC ION(Non-covalent)

ZN.5: 5 residues within 4Å: Chain A: S.830, H.834, D.845, H.1062, H.1066 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:H.834, A:D.845, A:D.845, A:H.1062, A:H.1066 ZN.8: 5 residues within 4Å: Chain B: S.830, H.834, D.845, H.1062, H.1066 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:H.834, B:D.845, B:D.845, B:H.1062, B:H.1066

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 4 residues within 4Å: Chain A: Q.489, N.490, M.492, P.494 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.490, A:M.492

2 x OLA: OLEIC ACID(Non-covalent)

OLA.7: 10 residues within 4Å: Chain A: F.968, S.982, Y.983, G.986, I.989, C.990, L.1029, F.1032, F.1033, N.1035 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:F.968, A:I.989, A:L.1029, A:F.1033, A:F.1033, A:F.1033 Hydrogen bonds: A:S.982, A:S.982, A:N.1035 OLA.13: 9 residues within 4Å: Chain B: F.968, S.982, Y.983, G.986, C.990, L.1029, F.1032, F.1033, N.1035 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.968, B:L.1029, B:F.1033, B:F.1033, B:F.1033 Hydrogen bonds: B:S.982, B:S.982, B:N.1035

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, J. et al., Structural insights into double-stranded RNA recognition and transport by SID-1. Nat.Struct.Mol.Biol. (2024)

Release Date

2024-05-01

Peptides

Green fluorescent protein,SID1 transmembrane family member 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Membrane

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