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- EMDB-0045: Negative stain EM map of the inner membrane protein GspF (XcpS) o... -
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Open data
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Basic information
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Title | Negative stain EM map of the inner membrane protein GspF (XcpS) of the bacterial type II secretion system | ||||||||||||
![]() | Final map after 3D refinement (Relion) low-pass filtered to 2nm. | ||||||||||||
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Biological species | ![]() ![]() | ||||||||||||
Method | single particle reconstruction / negative staining / Resolution: 20.0 Å | ||||||||||||
![]() | Van Putte W / Savvides S | ||||||||||||
Funding support | ![]() ![]()
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![]() | ![]() Title: The inner membrane protein GspF of the bacterial type II secretion system adopts a dimeric structure to mediate pseudopilus biogenesis Authors: Van Putte W / Savvides S / Kudryashev M / De Vos T | ||||||||||||
History |
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Structure visualization
Structure viewer | EM map: ![]() ![]() ![]() |
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Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 3.5 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 9.2 KB 9.2 KB | Display Display | ![]() |
Images | ![]() | 82.9 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||
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Annotation | Final map after 3D refinement (Relion) low-pass filtered to 2nm. | ||||||||||||||||||||
Voxel size | X=Y=Z: 2.29 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
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Sample components
-Entire : fusion protein of the His-HaloTag and XcpS
Entire | Name: fusion protein of the His-HaloTag and XcpS |
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Components |
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-Supramolecule #1: fusion protein of the His-HaloTag and XcpS
Supramolecule | Name: fusion protein of the His-HaloTag and XcpS / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: ![]() ![]() |
Recombinant expression | Organism: ![]() ![]() |
Molecular weight | Theoretical: 150 KDa |
-Macromolecule #1: His-HaloTag-XcpS
Macromolecule | Name: His-HaloTag-XcpS / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MAHHHHHHGS EIGTGFPFD P HYVEVLGE RM HYVDVGP RDG TPVLFL HGNP TSSYV WRNII PHVA PTHRCI APD LIGMGKS DK PDLGYFFD D HVRFMDAFI EALGLEEVVL VIHDWGSAL G FHWAKRNP ER VKGIAFM EFI RPIPTW DEWP EFARE ...String: MAHHHHHHGS EIGTGFPFD P HYVEVLGE RM HYVDVGP RDG TPVLFL HGNP TSSYV WRNII PHVA PTHRCI APD LIGMGKS DK PDLGYFFD D HVRFMDAFI EALGLEEVVL VIHDWGSAL G FHWAKRNP ER VKGIAFM EFI RPIPTW DEWP EFARE TFQAF RTTD VGRKLI IDQ NVFIEGT LP MGVVRPLT E VEMDHYREP FLNPVDREPL WRFPNELPI A GEPANIVA LV EEYMDWL HQS PVPKLL FWGT PGVLI PPAEA ARLA KSLPNC KAV DIGPGLN LL QEDNPDLI G SEIARWLST LGSSGLEVLF QGPGLSARD L ALVTRQLA TL VQAALPI EEA LRAAAA QSTS QRIQS MLLAV RAKV LEGHSL AGS LREFPTA FP ELYRATVA A GEHAGHLGP VLEQLADYTE QRQQSRQKI Q LALLYPVI LM VASLAIV GFL LGYVVP DVVR VFIDS GQTLP LLTR VLIGVS DWV KAWGALA FV AAIGGVIG F RYALRKDAF RERWHGFLLR VPLVGRLVR S TDTARFAS TL AILTRSG VPL VEALAI AAEV IANRI IRNEV VKAA QKVREG ASL TRSLEAT GQ FPPMMLHM I ASGERSGEL DQMLARTARN QENDLAAQI G LMVGLFEP FM LIFMGAV VLV IVLAIL LPIL SLNQL VG |
-Experimental details
-Structure determination
Method | negative staining |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Staining | Type: NEGATIVE / Material: Uranyl Acetate |
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Electron microscopy
Microscope | JEOL 1400 |
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Image recording | Film or detector model: TVIPS TEMCAM-F416 (4k x 4k) / Average electron dose: 2.0 e/Å2 |
Electron beam | Acceleration voltage: 120 kV / Electron source: LAB6 |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
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Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 20.0 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 2522 |
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Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |