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- EMDB-19483: Stalk C5 at 2.97A - Local refinement with C5 symmetry of the Stal... -
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Open data
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Basic information
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Title | Stalk C5 at 2.97A - Local refinement with C5 symmetry of the Stalk complex from the fully-assembled R388 type IV secretion system. | |||||||||||||||
![]() | Stalk-C5 _ Unsharpened | |||||||||||||||
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Function / homology | ![]() ![]() ![]() ![]() ![]() ![]() | |||||||||||||||
Biological species | ![]() ![]() ![]() | |||||||||||||||
Method | ![]() ![]() | |||||||||||||||
![]() | Mace K / Waksman G | |||||||||||||||
Funding support | ![]()
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![]() | ![]() Title: Cryo-EM structure of a conjugative type 4 secretion system identifies a molecular switch regulating conjugative pilus biogenesis Authors: Mace K / Waksman G | |||||||||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 257 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 17.4 KB 17.4 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 16.9 KB | Display | ![]() |
Images | ![]() | 55.8 KB | ||
Masks | ![]() | 512 MB | ![]() | |
Filedesc metadata | ![]() | 5.6 KB | ||
Others | ![]() ![]() ![]() | 454.7 MB 474.3 MB 474.3 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8rt9MC ![]() 8rt4C ![]() 8rt5C ![]() 8rt6C ![]() 8rt7C ![]() 8rt8C ![]() 8rtaC ![]() 8rtbC ![]() 8rtdC 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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Map
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Annotation | Stalk-C5 _ Unsharpened | ||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.067 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | ![]() | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Additional map: Stalk-C5 Sharpened-deepEMhancer
File | emd_19483_additional_1.map | ||||||||||||
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Annotation | Stalk-C5 _ Sharpened-deepEMhancer | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half-A
File | emd_19483_half_map_1.map | ||||||||||||
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Annotation | Half-A | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half-B
File | emd_19483_half_map_2.map | ||||||||||||
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Annotation | Half-B | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : Stalk complex from the fully-assembled R388 type IV secretion system
Entire | Name: Stalk complex from the fully-assembled R388 type IV secretion system |
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Components |
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-Supramolecule #1: Stalk complex from the fully-assembled R388 type IV secretion system
Supramolecule | Name: Stalk complex from the fully-assembled R388 type IV secretion system type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() ![]() ![]() |
-Macromolecule #1: TrwJ protein
Macromolecule | Name: TrwJ protein / type: protein_or_peptide / ID: 1 / Details: Sequence from conjugative plasmid R388 / Number of copies: 5 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() ![]() |
Molecular weight | Theoretical: 25.190461 KDa |
Recombinant expression | Organism: ![]() ![]() ![]() |
Sequence | String: MKKLVMTAAV AAILGAASPV MAQGIPVFDG TRALDFVQQF ARMKEQLDTA KDQLAEAQRM YEAVTGGRGL GDLMRNAQLR EYLPDDLRT VYDSANGGGY SGISGSINDI LRDERLNGSV ADMRRSIEER SRTAAATDKA VGLRAYEGAQ QRLAQIEGLM D EISRTQDQ ...String: MKKLVMTAAV AAILGAASPV MAQGIPVFDG TRALDFVQQF ARMKEQLDTA KDQLAEAQRM YEAVTGGRGL GDLMRNAQLR EYLPDDLRT VYDSANGGGY SGISGSINDI LRDERLNGSV ADMRRSIEER SRTAAATDKA VGLRAYEGAQ QRLAQIEGLM D EISRTQDQ KAIEELQARI AGEQAAIQNE TTKLQMIAQL RQAEQALISE QRRERNMRIL SSGNQGMPTI Q UniProtKB: TrwJ protein |
-Macromolecule #2: TrwI protein
Macromolecule | Name: TrwI protein / type: protein_or_peptide / ID: 2 / Details: Sequence from conjugative plasmid R388 / Number of copies: 5 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() ![]() |
Molecular weight | Theoretical: 35.324172 KDa |
Recombinant expression | Organism: ![]() ![]() ![]() |
Sequence | String: MAFELFTPLF NKIDQTTATY VTDISSRAIA AITPVVSVGL TLGFITYGWL IIRGAVEMPV AEFLNRCLRI GIIVSIALAG GLYQGEIAN AITTVPDELA SALLGNPTQG ASAAALVDQS AQQGFDRASE AFEEAGFFSS DGLLYGLFGI IILLATGLLA A IGGAFLLL ...String: MAFELFTPLF NKIDQTTATY VTDISSRAIA AITPVVSVGL TLGFITYGWL IIRGAVEMPV AEFLNRCLRI GIIVSIALAG GLYQGEIAN AITTVPDELA SALLGNPTQG ASAAALVDQS AQQGFDRASE AFEEAGFFSS DGLLYGLFGI IILLATGLLA A IGGAFLLL AKIALALLAG LGPLFILALI WQPTHRFFDQ WAQQVLNYGL LIVLFAAVFG LLMQIFGSYM ADLRFDGAQN VA YAIGGSV ILSIVSIVLL MQLPSIASGL AGGIGLGYMW ELRSMRSGAG AAMRGGRAMA RGARAAPGAA RGAAVGAANM AKT VATGGA GVARAAAGYF RGRKAG UniProtKB: TrwI protein |
-Experimental details
-Structure determination
Method | ![]() |
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Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.6 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | TFS KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: OTHER / Imaging mode: OTHER / Nominal defocus max: 3.3000000000000003 µm / Nominal defocus min: 1.5 µm |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 57.5 e/Å2 |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |