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Author
Journal
IF

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Structure paper

TitleSymmetric scaffolds enable de novo modelling of RNA by cryoEM
Journal, issue, pagesTo Be Published
Publish dateFeb 11, 2025 (structure data deposition date)
AuthorsJones CP / Ferre-D'Amare AR
External linksSearch PubMed
MethodsEM (single particle)
Resolution2.52 - 3.92 Å
Structure data

49180

9na1

EMDB-49180, PDB-9na1:
RNA scaffold
Method: EM (single particle) / Resolution: 3.51 Å

49181

9na7

EMDB-49181, PDB-9na7:
RNA scaffold
Method: EM (single particle) / Resolution: 3.56 Å

49197

9nak

EMDB-49197, PDB-9nak:
RNA scaffold attached to tRNA
Method: EM (single particle) / Resolution: 3.67 Å

49199

9nam

EMDB-49199, PDB-9nam:
RNA scaffold attached to Mango in the absence of ligand
Method: EM (single particle) / Resolution: 2.87 Å

49200

9nap

EMDB-49200, PDB-9nap:
RNA scaffold attached to Mango in the presence of TO1-biotin
Method: EM (single particle) / Resolution: 3.01 Å

49202

9nas

EMDB-49202, PDB-9nas:
RNA scaffold attached to disordered U1A stem loop
Method: EM (single particle) / Resolution: 2.72 Å

49226

9nbc

EMDB-49226, PDB-9nbc:
RNA scaffold attached to 8-oxoguanine riboswitch aptamer
Method: EM (single particle) / Resolution: 2.87 Å

49229

9nbh

EMDB-49229, PDB-9nbh:
RNA scaffold attached to 8-oxoguanine riboswitch aptamer core only
Method: EM (single particle) / Resolution: 2.52 Å

49272

9ndd

EMDB-49272, PDB-9ndd:
RNA scaffold attached to 8-oxoguanine riboswitch aptamer, combined core plus aptamer
Method: EM (single particle) / Resolution: 2.67 Å

49278

9ndv

EMDB-49278, PDB-9ndv:
Scaffold attached to quinine-I aptamer (Tonic) local refinement of aptamer
Method: EM (single particle) / Resolution: 2.92 Å

49279

9ndw

EMDB-49279, PDB-9ndw:
Scaffold attached to quinine-I aptamer (Tonic) local refinement of core
Method: EM (single particle) / Resolution: 2.71 Å

49280

9ndx

EMDB-49280, PDB-9ndx:
Scaffold attached to quinine-I aptamer (Tonic) refinement of aptamer and core
Method: EM (single particle) / Resolution: 2.94 Å

EMDB-49309: Scaffold attached to Mango without ligand, local refinement of core, tilted data collection of tetramer
Method: EM (single particle) / Resolution: 3.41 Å

EMDB-49310: Scaffold attached to Mango without ligand, local refinement of aptamer, tilted data collection of tetramer
Method: EM (single particle) / Resolution: 3.49 Å

EMDB-49332: RNA scaffold attached to 8-oxoguanine riboswitch aptamer Glacios data
Method: EM (single particle) / Resolution: 3.92 Å

EMDB-49334: RNA scaffold attached to 8-oxoguanine riboswitch core Glacios data
Method: EM (single particle) / Resolution: 3.35 Å

Chemicals

ChemComp-MG:
Unknown entry

ChemComp-HOH:
WATER

ChemComp-K:
Unknown entry

ChemComp-EKJ:
4-[(3-{2-[(2-methoxyethyl)amino]-2-oxoethyl}-1,3-benzothiazol-3-ium-2-yl)methyl]-1-methylquinolin-1-ium

ChemComp-OXG:
8-OXOGUANINE

ChemComp-QI9:
Quinine / medication*YM

Source
  • unidentified (others)
  • synthetic construct (others)
  • other sequences (unknown)
KeywordsRNA / viral RNA / scaffold / engineering / Riboswitch / aptamer / Synthetic

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