+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-18420 | |||||||||
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Title | 275A Vipp1 helical tubes in the presence of EPL | |||||||||
Map data | ||||||||||
Sample |
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Keywords | membrane remodeling / membrane tubulation / LIPID BINDING PROTEIN | |||||||||
Function / homology | PspA/IM30 / PspA/IM30 family / plasma membrane / Membrane-associated protein Vipp1 Function and homology information | |||||||||
Biological species | Synechocystis sp. PCC 6803 (bacteria) | |||||||||
Method | helical reconstruction / cryo EM / Resolution: 7.0 Å | |||||||||
Authors | Junglas B / Sachse C | |||||||||
Funding support | Germany, 2 items
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Citation | Journal: To Be Published Title: Structural basis for Vipp1 membrane binding: From rings and rods to carpets Authors: Junglas B / Kartte D / Ritter I / Schneider D / Sachse C | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_18420.map.gz | 37.7 MB | EMDB map data format | |
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Header (meta data) | emd-18420-v30.xml emd-18420.xml | 13.1 KB 13.1 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_18420_fsc.xml | 16.8 KB | Display | FSC data file |
Images | emd_18420.png | 63.6 KB | ||
Filedesc metadata | emd-18420.cif.gz | 5.2 KB | ||
Others | emd_18420_half_map_1.map.gz emd_18420_half_map_2.map.gz | 441.8 MB 441.8 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-18420 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-18420 | HTTPS FTP |
-Validation report
Summary document | emd_18420_validation.pdf.gz | 1.1 MB | Display | EMDB validaton report |
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Full document | emd_18420_full_validation.pdf.gz | 1.1 MB | Display | |
Data in XML | emd_18420_validation.xml.gz | 25.8 KB | Display | |
Data in CIF | emd_18420_validation.cif.gz | 33.8 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-18420 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-18420 | HTTPS FTP |
-Related structure data
Related structure data | 8qhvMC 8qfvC 8qhwC 8qhxC 8qhyC 8qhzC 8qi0C 8qi1C 8qi2C 8qi3C 8qi4C 8qi5C 8qi6C 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_18420.map.gz / Format: CCP4 / Size: 476.8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.869 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Sample components
-Entire : Vipp1 with EPL
Entire | Name: Vipp1 with EPL |
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Components |
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-Supramolecule #1: Vipp1 with EPL
Supramolecule | Name: Vipp1 with EPL / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Synechocystis sp. PCC 6803 (bacteria) |
-Macromolecule #1: Membrane-associated protein Vipp1
Macromolecule | Name: Membrane-associated protein Vipp1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Synechocystis sp. PCC 6803 (bacteria) |
Molecular weight | Theoretical: 23.590465 KDa |
Recombinant expression | Organism: Escherichia coli BL21(DE3) (bacteria) |
Sequence | String: ALFDRLGRVV RANLNDLVSK AEDPEKVLEQ AVIDMQEDLV QLRQAVARTI AEEKRTEQRL NQDTQEAKKW EDRAKLALTN GEENLAREA LARKKSLTDT AAAYQTQLAQ QRTMSENLRR NLAALEAKIS EAKTKKNMLQ ARAKAAKANA ELQQTLGGLG T SSATSAFE ...String: ALFDRLGRVV RANLNDLVSK AEDPEKVLEQ AVIDMQEDLV QLRQAVARTI AEEKRTEQRL NQDTQEAKKW EDRAKLALTN GEENLAREA LARKKSLTDT AAAYQTQLAQ QRTMSENLRR NLAALEAKIS EAKTKKNMLQ ARAKAAKANA ELQQTLGGLG T SSATSAFE RMENKVLDME ATSQAAGELA GFGIENQFAQ LEASSGVEDE LAALKAS UniProtKB: Membrane-associated protein Vipp1 |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | helical reconstruction |
Aggregation state | helical array |
-Sample preparation
Buffer | pH: 8 |
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Sugar embedding | Material: vitreous ice |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TALOS ARCTICA |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 48.0 e/Å2 |
Electron beam | Acceleration voltage: 200 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 3.0 µm / Nominal defocus min: 1.0 µm |
Experimental equipment | Model: Talos Arctica / Image courtesy: FEI Company |