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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | Non-targeted transpososome from ShCAST | |||||||||
![]() | composite map of focused refinements | |||||||||
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![]() | CAST / transposase / AAA+ ATPase / AAA+ / CRISPR / Cas / DNA BINDING PROTEIN-DNA complex / DNA BINDING PROTEIN | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 8.11 Å | |||||||||
![]() | Park J / Kellogg EH | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Mechanism of target site selection by type V-K CRISPR-associated transposases. Authors: Jerrin Thomas George / Christopher Acree / Jung-Un Park / Muwen Kong / Tanner Wiegand / Yanis Luca Pignot / Elizabeth H Kellogg / Eric C Greene / Samuel H Sternberg / ![]() ![]() Abstract: CRISPR-associated transposases (CASTs) repurpose nuclease-deficient CRISPR effectors to catalyze RNA-guided transposition of large genetic payloads. Type V-K CASTs offer potential technology ...CRISPR-associated transposases (CASTs) repurpose nuclease-deficient CRISPR effectors to catalyze RNA-guided transposition of large genetic payloads. Type V-K CASTs offer potential technology advantages but lack accuracy, and the molecular basis for this drawback has remained elusive. Here, we reveal that type V-K CASTs maintain an RNA-independent, "untargeted" transposition pathway alongside RNA-dependent integration, driven by the local availability of TnsC filaments. Using cryo-electron microscopy, single-molecule experiments, and high-throughput sequencing, we found that a minimal, CRISPR-less transpososome preferentially directs untargeted integration at AT-rich sites, with additional local specificity imparted by TnsB. By exploiting this knowledge, we suppressed untargeted transposition and increased type V-K CAST specificity up to 98.1% in cells without compromising on-target integration efficiency. These findings will inform further engineering of CAST systems for accurate, kilobase-scale genome engineering applications. | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 4.8 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 22.8 KB 22.8 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 12 KB | Display | ![]() |
Images | ![]() | 39.4 KB | ||
Filedesc metadata | ![]() | 6 KB | ||
Others | ![]() ![]() ![]() | 4.9 MB 4.9 MB 4.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 366.8 KB | Display | ![]() |
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Full document | ![]() | 366.4 KB | Display | |
Data in XML | ![]() | 13.1 KB | Display | |
Data in CIF | ![]() | 17.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | composite map of focused refinements | ||||||||||||||||||||
Voxel size | X=Y=Z: 1.33 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Additional map: Local-resolution filtered consensus map
File | emd_41280_additional_1.map | ||||||||||||
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Annotation | Local-resolution filtered consensus map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: Local-resolution filtered map from focused refinement of TnsC-TniQ...
File | emd_41280_additional_2.map | ||||||||||||
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Annotation | Local-resolution filtered map from focused refinement of TnsC-TniQ region | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: Local-resolution filtered map from focused refinement of TnsB region
File | emd_41280_additional_3.map | ||||||||||||
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Annotation | Local-resolution filtered map from focused refinement of TnsB region | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Non-targeted transpososome from ShCAST
Entire | Name: Non-targeted transpososome from ShCAST |
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Components |
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-Supramolecule #1: Non-targeted transpososome from ShCAST
Supramolecule | Name: Non-targeted transpososome from ShCAST / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 400 KDa |
-Macromolecule #1: TnsB from ShCAST
Macromolecule | Name: TnsB from ShCAST / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MNSQQNPDLA VHPLAIPMEG LLGESATTLE KNVIATQLSE EAQVKLEVIQ SLLEPCDRTT YGQKLREAAE KLNVSLRTVQ RLVKNWEQDG LVGLTQTSRA DKGKHRIGEF WENFITKTYK EGNKGSKRMT PKQVALRVEA KARELKDSKP PNYKTVLRVL APILEKQQKA ...String: MNSQQNPDLA VHPLAIPMEG LLGESATTLE KNVIATQLSE EAQVKLEVIQ SLLEPCDRTT YGQKLREAAE KLNVSLRTVQ RLVKNWEQDG LVGLTQTSRA DKGKHRIGEF WENFITKTYK EGNKGSKRMT PKQVALRVEA KARELKDSKP PNYKTVLRVL APILEKQQKA KSIRSPGWRG TTLSVKTREG KDLSVDYSNH VWQCDHTRVD VLLVDQHGEI LSRPWLTTVI DTYSRCIMGI NLGFDAPSSG VVALALRHAI LPKRYGSEYK LHCEWGTYGK PEHFYTDGGK DFRSNHLSQI GAQLGFVCHL RDRPSEGGVV ERPFKTLNDQ LFSTLPGYTG SNVQERPEDA EKDARLTLRE LEQLLVRYIV DRYNQSIDAR MGDQTRFERW EAGLPTVPVP IPERDLDICL MKQSRRTVQR GGCLQFQNLM YRGEYLAGYA GETVNLRFDP RDITTILVYR QENNQEVFLT RAHAQGLETE QLALDEAEAA SRRLRTAGKT ISNQSLLQEV VDRDALVATK KSRKERQKLE QTVLRSAAVD ESNRESLPSQ IVEPDEVEST ETVHSQYEDI EVWDYEQLRE EYGF |
-Macromolecule #2: TnsC from ShCAST
Macromolecule | Name: TnsC from ShCAST / type: protein_or_peptide / ID: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MTEAQAIAKQ LGGVKPDDEW LQAEIARLKG KSIVPLQQVK TLHDWLDGKR KARKSCRVVG ESRTGKTVAC DAYRYRHKPQ QEAGRPPTVP VVYIRPHQKC GPKDLFKKIT EYLKYRVTKG TVSDFRDRTI EVLKGCGVEM LIIDEADRLK PETFADVRDI AEDLGIAVVL ...String: MTEAQAIAKQ LGGVKPDDEW LQAEIARLKG KSIVPLQQVK TLHDWLDGKR KARKSCRVVG ESRTGKTVAC DAYRYRHKPQ QEAGRPPTVP VVYIRPHQKC GPKDLFKKIT EYLKYRVTKG TVSDFRDRTI EVLKGCGVEM LIIDEADRLK PETFADVRDI AEDLGIAVVL VGTDRLDAVI KRDEQVLERF RAHLRFGKLS GEDFKNTVEM WEQMVLKLPV SSNLKSKEML RILTSATEGY IGRLDEILRE AAIRSLSRGL KKIDKAVLQE VAKEYK |
-Macromolecule #3: TniQ from ShCAST
Macromolecule | Name: TniQ from ShCAST / type: protein_or_peptide / ID: 3 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MIEAPDVKPW LFLIKPYEGE SLSHFLGRFR RANHLSASGL GTLAGIGAIV ARWERFHFNP RPSQQELEAI ASVVEVDAQR LAQMLPPAGV GMQHEPIRLC GACYAESPCH RIEWQYKSVW KCDRHQLKIL AKCPNCQAPF KMPALWEDGC CHRCRMPFAE MAKLQKV |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Concentration | 0.4 mg/mL | |||||||||||||||||||||
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Buffer | pH: 7.5 Component:
Details: 25 mM HEPES pH 7.5, 200 mM NaCl, 1 mM DTT, 2 mM ATP, and 10 mM MgCl2 and 2% glycerol | |||||||||||||||||||||
Grid | Model: Quantifoil R1.2/1.3 / Material: COPPER / Support film - Material: GRAPHENE OXIDE / Support film - topology: CONTINUOUS / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec. | |||||||||||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 277.15 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | FEI TECNAI ARCTICA |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Number grids imaged: 2 / Number real images: 3081 / Average exposure time: 3.2 sec. / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: ![]() |
Electron optics | C2 aperture diameter: 50.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.5 µm / Nominal defocus min: 1.0 µm / Nominal magnification: 63000 |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Talos Arctica / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Refinement | Protocol: AB INITIO MODEL |
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