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- PDB-26hh: Cryo-EM structure of Ll.LtrB Group II intron within graphene reservoir -

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Basic information

Entry
Database: PDB / ID: 26hh
TitleCryo-EM structure of Ll.LtrB Group II intron within graphene reservoir
ComponentsRNA (932-MER)
KeywordsRNA / Ll.LtrB Group II intron
Function / homologyRNA / RNA (> 10) / RNA (> 100)
Function and homology information
Biological speciesLactococcus cremoris (lactic acid bacteria)
MethodELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.7 Å
AuthorsZheng, L.M. / Song, J.L. / Zhao, X.L. / Liu, N. / Peng, H.L. / Wang, H.W.
Funding support China, 1items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC) China
CitationJournal: To Be Published
Title: Control of ice thickness in cryo-EM via confinement
Authors: Zheng, L.M. / Song, J.L. / Zhao, X.L. / Liu, N. / Peng, H.L. / Wang, H.W.
History
DepositionApr 30, 2026Deposition site: PDBJ / Processing site: PDBC
Revision 1.0Sep 30, 2026Provider: repository / Type: Initial release

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

Downloads & links

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Assembly

Deposited unit
A: RNA (932-MER)


Theoretical massNumber of molelcules
Total (without water)301,0451
Polymers301,0451
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
  • Evidence: electron microscopy, not applicable
TypeNameSymmetry operationNumber
identity operation1_5551

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Components

#1: RNA chain RNA (932-MER)


Mass: 301044.688 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Lactococcus cremoris (lactic acid bacteria)
Production host: Lactococcus cremoris (lactic acid bacteria)
Has protein modificationN

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Experimental details

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Experiment

ExperimentMethod: ELECTRON MICROSCOPY
EM experimentAggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction

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Sample preparation

ComponentName: Ll.LtrB group II intron / Type: COMPLEX / Entity ID: all / Source: RECOMBINANT
Source (natural)Organism: Lactococcus cremoris (lactic acid bacteria)
Source (recombinant)Organism: Lactococcus cremoris (lactic acid bacteria)
Buffer solutionpH: 7.4
SpecimenEmbedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES
VitrificationCryogen name: ETHANE

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Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
MicroscopyModel: TFS KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM
Electron lensMode: BRIGHT FIELD / Nominal defocus max: 1500 nm / Nominal defocus min: 1200 nm
Image recordingElectron dose: 50 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k)

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Processing

EM software
IDNameCategory
1cryoSPARCparticle selection
13cryoSPARC3D reconstruction
CTF correctionType: NONE
3D reconstructionResolution: 2.7 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 179409 / Symmetry type: POINT

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