+
Open data
-
Basic information
Entry | ![]() | |||||||||
---|---|---|---|---|---|---|---|---|---|---|
Title | Cryo-EM structure of the AsCas12f-YHAM-sgRNAS3-5v7-target DNA | |||||||||
![]() | ||||||||||
![]() |
| |||||||||
![]() | ![]() ![]() | |||||||||
Function / homology | Transposase IS605, OrfB, C-terminal / Putative transposase DNA-binding domain / ![]() ![]() ![]() ![]() ![]() ![]() | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Hino T / Omura NS / Nakagawa R / Togashi T / Takeda NS / Hiramoto T / Tasaka S / Hirano H / Tokuyama T / Uosaki H ...Hino T / Omura NS / Nakagawa R / Togashi T / Takeda NS / Hiramoto T / Tasaka S / Hirano H / Tokuyama T / Uosaki H / Ishiguro H / Yamano H / Ozaki Y / Motooka D / Mori H / Kirita Y / Kise Y / Itoh Y / Matoba S / Aburatani H / Yachie N / Siksnys V / Ohmori T / Hoshino A / Nureki O | |||||||||
Funding support | ![]()
| |||||||||
![]() | ![]() Title: Minimal and most efficient genome editing Cas enzyme Authors: Hino T / Omura NS / Nakagawa R / Togashi T / Takeda NS / Hiramoto T / Tasaka S / Hirano H / Tokuyama T / Uosaki H / Ishiguro H / Yamano H / Ozaki Y / Motooka D / Mori H / Kirita Y / Kise Y / ...Authors: Hino T / Omura NS / Nakagawa R / Togashi T / Takeda NS / Hiramoto T / Tasaka S / Hirano H / Tokuyama T / Uosaki H / Ishiguro H / Yamano H / Ozaki Y / Motooka D / Mori H / Kirita Y / Kise Y / Itoh Y / Matoba S / Aburatani H / Yachie N / Siksnys V / Ohmori T / Hoshino A / Nureki O | |||||||||
History |
|
-
Structure visualization
Supplemental images |
---|
-
Downloads & links
-EMDB archive
Map data | ![]() | 4.5 MB | ![]() | |
---|---|---|---|---|
Header (meta data) | ![]() ![]() | 17.9 KB 17.9 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 6.5 KB | Display | ![]() |
Images | ![]() | 140.8 KB | ||
Others | ![]() ![]() | 4.5 MB 4.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8j1jMC ![]() 8j12C ![]() 8j3rC M: atomic model generated by this map C: citing same article ( |
---|---|
Similar structure data | Similarity search - Function & homology ![]() |
-
Links
EMDB pages | ![]() ![]() |
---|
-
Map
File | ![]() | ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Voxel size | X=Y=Z: 1.328 Å | ||||||||||||||||||||
Density |
| ||||||||||||||||||||
Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
|
-Supplemental data
-Half map: #2
File | emd_35926_half_map_1.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Projections & Slices |
| ||||||||||||
Density Histograms |
-Half map: #1
File | emd_35926_half_map_2.map | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Projections & Slices |
| ||||||||||||
Density Histograms |
-
Sample components
-Entire : AsCas12f-YHAM-sgRNAS3-5v7-target DNA
Entire | Name: AsCas12f-YHAM-sgRNAS3-5v7-target DNA |
---|---|
Components |
|
-Supramolecule #1: AsCas12f-YHAM-sgRNAS3-5v7-target DNA
Supramolecule | Name: AsCas12f-YHAM-sgRNAS3-5v7-target DNA / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#4 |
---|---|
Source (natural) | Organism: ![]() |
-Macromolecule #1: Transposase IS605 OrfB C-terminal domain-containing protein
Macromolecule | Name: Transposase IS605 OrfB C-terminal domain-containing protein type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
---|---|
Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 49.966105 KDa |
Recombinant expression | Organism: ![]() ![]() ![]() |
Sequence | String: MGHHHHHHGS MIKVYRYEIV KPLDLDWKEF GTILRQLQQE TRFALNKATQ LAWEWMGYSS DYKDNHGEYP KSKDILGYTN VHGYAYHTI KTKAYRLNSG NLSQTIKRAT DRFKAYQKEI LRGDMSIPSY KRDIPLDLIK ENISVNRMNH GDYIASLSLL S NPAKQEMN ...String: MGHHHHHHGS MIKVYRYEIV KPLDLDWKEF GTILRQLQQE TRFALNKATQ LAWEWMGYSS DYKDNHGEYP KSKDILGYTN VHGYAYHTI KTKAYRLNSG NLSQTIKRAT DRFKAYQKEI LRGDMSIPSY KRDIPLDLIK ENISVNRMNH GDYIASLSLL S NPAKQEMN VKRKISVIII VRGAGKTIMD RILSGEYQVH ASQIIHDDRK NKWYLNISYD FEPQTRVLDL NKIMGIDLGV AV AAYMAFQ HTPARYKLEG GEIENFRRQV ESRRISMLRQ GKYAGGARGG HGRDKRIKPI EQLRDKIANF RDTTNHRYSR YIV DMAIKM GCGTIQMEDL TNIRDIGSRF LQNWTYYDLQ QKIIYKAEEA GIKVIKIDPQ YTSQRCSECG NIDSGNRIGQ AIFK CRACG YEANADYNAA RNIAIPNIDK IIAESIK UniProtKB: CRISPR-associated endodeoxyribonuclease Cas12f1 |
-Macromolecule #2: DNA (38-MER)
Macromolecule | Name: DNA (38-MER) / type: dna / ID: 2 / Number of copies: 1 / Classification: DNA |
---|---|
Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 11.694576 KDa |
Sequence | String: (DG)(DA)(DA)(DT)(DG)(DG)(DT)(DT)(DC)(DA) (DA)(DG)(DC)(DG)(DC)(DA)(DC)(DC)(DT)(DA) (DA)(DT)(DT)(DT)(DC)(DC)(DT)(DA)(DA) (DA)(DT)(DT)(DA)(DG)(DA)(DA)(DA)(DA) |
-Macromolecule #3: DNA (38-MER)
Macromolecule | Name: DNA (38-MER) / type: dna / ID: 3 / Number of copies: 1 / Classification: DNA |
---|---|
Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 11.689535 KDa |
Sequence | String: (DT)(DT)(DT)(DT)(DC)(DT)(DA)(DA)(DT)(DT) (DT)(DA)(DG)(DG)(DA)(DA)(DA)(DT)(DT)(DA) (DG)(DG)(DT)(DG)(DC)(DG)(DC)(DT)(DT) (DG)(DA)(DA)(DC)(DC)(DA)(DT)(DT)(DC) |
-Macromolecule #4: RNA (118-MER)
Macromolecule | Name: RNA (118-MER) / type: rna / ID: 4 / Number of copies: 1 |
---|---|
Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 38.288805 KDa |
Sequence | String: GGAUUCGUCG GUUCAGCGAC GAUAAGCCGA GAAGUGCCAA UAAAACUGUU AAGUGGUUUG GUAACGCUCG GUAAGGUCCG AAAGGAGAA CCACUGAACG GAAAUUAGGU GCGCUUGGC |
-Macromolecule #5: ZINC ION
Macromolecule | Name: ZINC ION / type: ligand / ID: 5 / Number of copies: 2 / Formula: ZN |
---|---|
Molecular weight | Theoretical: 65.409 Da |
-Macromolecule #6: MAGNESIUM ION
Macromolecule | Name: MAGNESIUM ION / type: ligand / ID: 6 / Number of copies: 2 / Formula: MG |
---|---|
Molecular weight | Theoretical: 24.305 Da |
-Experimental details
-Structure determination
Method | ![]() |
---|---|
![]() | ![]() |
Aggregation state | particle |
-
Sample preparation
Buffer | pH: 7.6 |
---|---|
Vitrification | Cryogen name: ETHANE |
-
Electron microscopy
Microscope | FEI TITAN KRIOS |
---|---|
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: OTHER / Imaging mode: BRIGHT FIELD![]() |
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |