+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-33008 | ||||||||||||
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Title | A CBg-ParM filament with GTP and a short incubation time | ||||||||||||
Map data | |||||||||||||
Sample |
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Keywords | ParM actin-like plasmid segregation / CELL CYCLE | ||||||||||||
Function / homology | : Function and homology information | ||||||||||||
Biological species | Clostridium botulinum (bacteria) | ||||||||||||
Method | helical reconstruction / cryo EM / Resolution: 8.6 Å | ||||||||||||
Authors | Koh A / Ali S / Robinson R / Narita A | ||||||||||||
Funding support | Japan, 3 items
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Citation | Journal: To Be Published Title: A new actin-like filament from Clostridium botulinum exhibits a new system of filament turn over Authors: Koh A / Ali S / Popp D / Tanaka K / Kitaoku Y / Miyazaki N / Iwasaki K / Mitsuoka K / Robert R / Narita A | ||||||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_33008.map.gz | 28.2 MB | EMDB map data format | |
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Header (meta data) | emd-33008-v30.xml emd-33008.xml | 11.7 KB 11.7 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_33008_fsc.xml | 4.4 KB | Display | FSC data file |
Images | emd_33008.png | 40.8 KB | ||
Filedesc metadata | emd-33008.cif.gz | 5.5 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-33008 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-33008 | HTTPS FTP |
-Validation report
Summary document | emd_33008_validation.pdf.gz | 522.3 KB | Display | EMDB validaton report |
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Full document | emd_33008_full_validation.pdf.gz | 521.8 KB | Display | |
Data in XML | emd_33008_validation.xml.gz | 8.4 KB | Display | |
Data in CIF | emd_33008_validation.cif.gz | 10.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33008 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33008 | HTTPS FTP |
-Related structure data
Related structure data | 7x55MC 7x54C 7x56C 7x59C M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_33008.map.gz / Format: CCP4 / Size: 30.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.87 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Sample components
-Entire : CBg-ParM filament with GTP and a short incubation time
Entire | Name: CBg-ParM filament with GTP and a short incubation time |
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Components |
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-Supramolecule #1: CBg-ParM filament with GTP and a short incubation time
Supramolecule | Name: CBg-ParM filament with GTP and a short incubation time type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Clostridium botulinum (bacteria) / Strain: Bf |
-Macromolecule #1: ParM/StbA family protein
Macromolecule | Name: ParM/StbA family protein / type: protein_or_peptide / ID: 1 / Number of copies: 5 / Enantiomer: LEVO |
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Source (natural) | Organism: Clostridium botulinum (bacteria) |
Molecular weight | Theoretical: 32.545352 KDa |
Recombinant expression | Organism: Escherichia coli BL21 (bacteria) |
Sequence | String: MKITVVDLGN INVKYVGENK GRFSSKITND YQSYEEGFQR VEYNGIKTYI GVGELSREFN KADRDYMAQL LYSLAKANTA DTKEINLTL LLPIIQMKNK TRLIETLKGE NFKFKFNGID REIKINDLMV LPEGYASYYS LDIENKKGDV CILDLGSRTI N ICVLENAK ...String: MKITVVDLGN INVKYVGENK GRFSSKITND YQSYEEGFQR VEYNGIKTYI GVGELSREFN KADRDYMAQL LYSLAKANTA DTKEINLTL LLPIIQMKNK TRLIETLKGE NFKFKFNGID REIKINDLMV LPEGYASYYS LDIENKKGDV CILDLGSRTI N ICVLENAK IVKTNTIKLG SFDFYSKIKS LENAKGEDYI EEDIQRLIDN GLIKVDSKQY IEFLSDILNA VKPYVNLKTY NT IFTGGTS LMLKEYIEKL PLNKFKVHPN ALTSNVDGAM EASKKVWN UniProtKB: UNIPROTKB: A0A6B3ZKE5 |
-Macromolecule #2: GUANOSINE-5'-TRIPHOSPHATE
Macromolecule | Name: GUANOSINE-5'-TRIPHOSPHATE / type: ligand / ID: 2 / Number of copies: 5 / Formula: GTP |
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Molecular weight | Theoretical: 523.18 Da |
Chemical component information | ChemComp-GTP: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | helical reconstruction |
Aggregation state | filament |
-Sample preparation
Concentration | 0.7 mg/mL | ||||||||||||
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Buffer | pH: 7.5 Component:
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Vitrification | Cryogen name: ETHANE / Chamber humidity: 90 % / Chamber temperature: 298 K / Instrument: LEICA EM GP |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Specialist optics | Phase plate: VOLTA PHASE PLATE |
Image recording | Film or detector model: FEI FALCON III (4k x 4k) / Average electron dose: 45.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.5 µm / Nominal defocus min: 0.5 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |