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- EMDB-36673: Cryo-EM structure of the Type II secretion system protein from Ac... -
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Open data
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Basic information
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Title | Cryo-EM structure of the Type II secretion system protein from Acidithiobacillus caldus | |||||||||
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![]() | Type II secretion system protein / Acidithiobacillus caldus / TOXIN | |||||||||
Function / homology | Pilus formation protein, N-terminal / Pilus formation protein N terminal region / GspD/PilQ family / Type II/III secretion system / Bacterial type II and III secretion system protein / type II protein secretion system complex / protein secretion / Type II and III secretion system protein![]() | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.39 Å | |||||||||
![]() | Liu RH / Zhang K / Feng QS / Dai X / Fu Y / Li Y | |||||||||
Funding support | 1 items
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![]() | ![]() Title: Cryo-EM structure of the Type II secretion system protein from Acidithiobacillus caldus Authors: Zhang K | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 395.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 12.6 KB 12.6 KB | Display Display | ![]() |
Images | ![]() | 71.9 KB | ||
Filedesc metadata | ![]() | 5.1 KB | ||
Others | ![]() ![]() | 391.5 MB 391.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 1.1 MB | Display | ![]() |
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Full document | ![]() | 1.1 MB | Display | |
Data in XML | ![]() | 18.3 KB | Display | |
Data in CIF | ![]() | 21.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8jvbMC 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
File | ![]() | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.668 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_36673_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_36673_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Type II secretion system protein
Entire | Name: Type II secretion system protein |
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Components |
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-Supramolecule #1: Type II secretion system protein
Supramolecule | Name: Type II secretion system protein / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: Type II and III secretion system protein
Macromolecule | Name: Type II and III secretion system protein / type: protein_or_peptide / ID: 1 / Number of copies: 14 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 53.556238 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MKLRGKILPL FVAIAMAIPA QAAEDRTIDL YAGQVRVIPT KPVKRVAIGD GKVLSTTVVD GNELLLLGDA EGETSLRVWF KDGSEAAYR VLVAPKNVGR AAEEMRELMG AEKSPAKIRV VGDHVVVDGK NLAPTTLARV RALQALYPKT IVLATPSPFD M EKMVWLDV ...String: MKLRGKILPL FVAIAMAIPA QAAEDRTIDL YAGQVRVIPT KPVKRVAIGD GKVLSTTVVD GNELLLLGDA EGETSLRVWF KDGSEAAYR VLVAPKNVGR AAEEMRELMG AEKSPAKIRV VGDHVVVDGK NLAPTTLARV RALQALYPKT IVLATPSPFD M EKMVWLDV NILEIRKSVL ENFGVDWSKQ IPGPFAAFGK DFVGPRNVAT IPLGQDLTQP PVAGTGVRVT PPLGSLNGAI DL ANLARPI AGTTNFGIIT GVLSTINFAL SNGDAYLIAN PQLSARSGGR TDFLAGGQVP ILQALAAGNA AFQNVTYKDY GIK LEFEPR VDDDNNVSMR VLADVSDIDP ATSVSLNGFT VPGFITRRSN AEINVGDGQT MVISGLVNPK TAKNVSKLPW LGDI PILGN LFKSTNFQSG NTDLVILVTP RVVSAASLEN IRQVSQAVEM KDEYRNTLPK GSTTRDAVDR TLGSKTPYPE TQAVP APKP SLPLVVTQPP AAMPSDKE UniProtKB: Type II and III secretion system protein |
-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 KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k 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: 3.2 µm / Nominal defocus min: 0.8 µm |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Startup model | Type of model: INSILICO MODEL |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.39 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 72834 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |