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Open data
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Basic information
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Title | Cryo-EM structure of SaCas9-AcrIIA15 CTD-sgRNA complex | |||||||||
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![]() | II-A type anti-CRISPR protein / VIRAL PROTEIN | |||||||||
Function / homology | ![]() maintenance of CRISPR repeat elements / endonuclease activity / defense response to virus / Hydrolases; Acting on ester bonds / DNA binding / RNA binding / metal ion binding Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.31 Å | |||||||||
![]() | Deng X / Wang Y | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cryo-EM structure of SaCas9-AcrIIA15 CTD-sgRNA complex Authors: Deng X / Wang Y | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 17 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 16.9 KB 16.9 KB | Display Display | ![]() |
Images | ![]() | 128.2 KB | ||
Filedesc metadata | ![]() | 6.1 KB | ||
Others | ![]() ![]() | 16.8 MB 16.8 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 917.5 KB | Display | ![]() |
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Full document | ![]() | 917 KB | Display | |
Data in XML | ![]() | 9.9 KB | Display | |
Data in CIF | ![]() | 11.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8jftMC M: atomic model generated by this map C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Voxel size | X=Y=Z: 1.04 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_36217_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_36217_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Ternary complex of SaCas9-AcrIIA15 CTD-sgRNA complex
Entire | Name: Ternary complex of SaCas9-AcrIIA15 CTD-sgRNA complex |
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Components |
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-Supramolecule #1: Ternary complex of SaCas9-AcrIIA15 CTD-sgRNA complex
Supramolecule | Name: Ternary complex of SaCas9-AcrIIA15 CTD-sgRNA complex / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#3 |
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-Supramolecule #2: SaCas9
Supramolecule | Name: SaCas9 / type: complex / ID: 2 / Parent: 1 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() ![]() |
-Supramolecule #3: sgRNA
Supramolecule | Name: sgRNA / type: complex / ID: 3 / Parent: 1 / Macromolecule list: #2 |
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Source (natural) | Organism: ![]() ![]() |
-Supramolecule #4: ACrIIA15
Supramolecule | Name: ACrIIA15 / type: complex / ID: 4 / Parent: 1 / Macromolecule list: #3 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: CRISPR-associated endonuclease Cas9
Macromolecule | Name: CRISPR-associated endonuclease Cas9 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: Hydrolases; Acting on ester bonds |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 124.158727 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MKRNYILGLD IGITSVGYGI IDYETRDVID AGVRLFKEAN VENNEGRRSK RGARRLKRRR RHRIQRVKKL LFDYNLLTDH SELSGINPY EARVKGLSQK LSEEEFSAAL LHLAKRRGVH NVNEVEEDTG NELSTKEQIS RNSKALEEKY VAELQLERLK K DGEVRGSI ...String: MKRNYILGLD IGITSVGYGI IDYETRDVID AGVRLFKEAN VENNEGRRSK RGARRLKRRR RHRIQRVKKL LFDYNLLTDH SELSGINPY EARVKGLSQK LSEEEFSAAL LHLAKRRGVH NVNEVEEDTG NELSTKEQIS RNSKALEEKY VAELQLERLK K DGEVRGSI NRFKTSDYVK EAKQLLKVQK AYHQLDQSFI DTYIDLLETR RTYYEGPGEG SPFGWKDIKE WYEMLMGHCT YF PEELRSV KYAYNADLYN ALNDLNNLVI TRDENEKLEY YEKFQIIENV FKQKKKPTLK QIAKEILVNE EDIKGYRVTS TGK PEFTNL KVYHDIKDIT ARKEIIENAE LLDQIAKILT IYQSSEDIQE ELTNLNSELT QEEIEQISNL KGYTGTHNLS LKAI NLILD ELWHTNDNQI AIFNRLKLVP KKVDLSQQKE IPTTLVDDFI LSPVVKRSFI QSIKVINAII KKYGLPNDII IELAR EKNS KDAQKMINEM QKRNRQTNER IEEIIRTTGK ENAKYLIEKI KLHDMQEGKC LYSLEAIPLE DLLNNPFNYE VDHIIP RSV SFDNSFNNKV LVKQEENSKK GNRTPFQYLS SSDSKISYET FKKHILNLAK GKGRISKTKK EYLLEERDIN RFSVQKD FI NRNLVDTRYA TRGLMNLLRS YFRVNNLDVK VKSINGGFTS FLRRKWKFKK ERNKGYKHHA EDALIIANAD FIFKEWKK L DKAKKVMENQ MFEEKQAESM PEIETEQEYK EIFITPHQIK HIKDFKDYKY SHRVDKKPNR ELINDTLYST RKDDKGNTL IVNNLNGLYD KDNDKLKKLI NKSPEKLLMY HHDPQTYQKL KLIMEQYGDE KNPLYKYYEE TGNYLTKYSK KDNGPVIKKI KYYGNKLNA HLDITDDYPN SRNKVVKLSL KPYRFDVYLD NGVYKFVTVK NLDVIKKENY YEVNSKCYEE AKKLKKISNQ A EFIASFYN NDLIKINGEL YRVIGVNNDL LNRIEVNMID ITYREYLENM NDKRPPRIIK TIASKTQSIK KYSTDILGNL YE VKSKKHP QIIKKG UniProtKB: CRISPR-associated endonuclease Cas9 |
-Macromolecule #3: AcrIIA15
Macromolecule | Name: AcrIIA15 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 13.787642 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MEKVDTWIVY RGRTADMNKS YIAEGSTYEE VYNNFVDKYG YDVLDEDIYE IQLLKKNGEN LDDYDVDSDG INNYDKLDEF RESDYVDLE DYDYRELFEN SSSQVYYHEF EITHE |
-Macromolecule #2: sgRNA of SaCas9
Macromolecule | Name: sgRNA of SaCas9 / type: rna / ID: 2 / Number of copies: 1 |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 31.304432 KDa |
Sequence | String: GGUCUGCUAU UUCUAUUUAC GUUUUAGUAC UCUGGAAACA GAAUCUACUA AAACAAGGCA AAAUGCCGUG UUUAUCUCGU CAACUUGUU GGCGAGAUC |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN |
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Image recording | Film or detector model: GATAN K2 QUANTUM (4k x 4k) / Average electron dose: 60.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.8 µm / Nominal defocus min: 1.4000000000000001 µm |
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Image processing
Startup model | Type of model: PDB ENTRY PDB model - PDB ID: |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.31 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 237732 |
Initial angle assignment | Type: PROJECTION MATCHING |
Final angle assignment | Type: ANGULAR RECONSTITUTION |
-Atomic model buiding 1
Refinement | Protocol: RIGID BODY FIT |
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Output model | ![]() PDB-8jft: |