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Open data
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Basic information
Entry | ![]() | |||||||||||||||
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Title | COPII outer coat vertex on vesicles | |||||||||||||||
![]() | Map. | |||||||||||||||
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![]() | COPII / coat / PROTEIN TRANSPORT | |||||||||||||||
Biological species | ![]() ![]() | |||||||||||||||
Method | subtomogram averaging / cryo EM / Resolution: 11.4 Å | |||||||||||||||
![]() | Zanetti G / Pyle E | |||||||||||||||
Funding support | European Union, ![]()
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![]() | ![]() Title: Cryo-electron tomography reveals how COPII assembles on cargo-containing membranes Authors: Zanetti G / Pyle E | |||||||||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 5.3 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 16.1 KB 16.1 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 4.7 KB | Display | ![]() |
Images | ![]() | 65.6 KB | ||
Masks | ![]() | 8 MB | ![]() | |
Filedesc metadata | ![]() | 5.7 KB | ||
Others | ![]() ![]() | 5.4 MB 5.4 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 773.8 KB | Display | ![]() |
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Full document | ![]() | 773.4 KB | Display | |
Data in XML | ![]() | 10 KB | Display | |
Data in CIF | ![]() | 13.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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Links
EMDB pages | ![]() ![]() |
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Map
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Annotation | Map. | ||||||||||||||||||||
Voxel size | X=Y=Z: 3.052 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
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Projections & Slices |
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Density Histograms |
-Half map: Half map 2.
File | emd_19418_half_map_1.map | ||||||||||||
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Annotation | Half map 2. | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map 1.
File | emd_19418_half_map_2.map | ||||||||||||
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Annotation | Half map 1. | ||||||||||||
Projections & Slices |
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Density Histograms |
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Sample components
-Entire : COPII outer coat vertex on vesicles
Entire | Name: COPII outer coat vertex on vesicles |
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Components |
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-Supramolecule #1: COPII outer coat vertex on vesicles
Supramolecule | Name: COPII outer coat vertex on vesicles / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all / Details: COPII outer coat vertex on vesicles |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 171 KDa |
-Macromolecule #1: Sec31
Macromolecule | Name: Sec31 / type: protein_or_peptide / ID: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MVKLAEFSRT ATFAWSHDK I PLLVSGTV SG TVDANFS TDS SLELWS LLAA DSEKP IASLQ VDSK FNDLDW SHN NKIIAGA LD NGSLELYS T NEANNAINS MARFSNHSSS VKTVKFNAK Q DNVLASGG NN GEIFIWD MNK CTESPS NYTP LTPGQ ...String: MVKLAEFSRT ATFAWSHDK I PLLVSGTV SG TVDANFS TDS SLELWS LLAA DSEKP IASLQ VDSK FNDLDW SHN NKIIAGA LD NGSLELYS T NEANNAINS MARFSNHSSS VKTVKFNAK Q DNVLASGG NN GEIFIWD MNK CTESPS NYTP LTPGQ SMSSV DEVI SLAWNQ SLA HVFASAG SS NFASIWDL K AKKEVIHLS YTSPNSGIKQ QLSVVEWHP K NSTRVATA TG SDNDPSI LIW DLRNAN TPLQ TLNQG HQKGI LSLD WCHQDE HLL LSSGRDN TV LLWNPESA E QLSQFPARG NWCFKTKFAP EAPDLFACA S FDNKIEVQ TL QNLTNTL DEQ ETETKQ QESE TDFWN NVSRE ESKE KPSVFH LQA PTWYGEP SP AAHWAFGG K LVQITPDGK GVSITNPKIS GLESNTTLS E ALKTKDFK PL INQRLVK VID DVNEED WNLL EKLSM DGTEE FLKE ALAFDN DES DAQDDAN NE KEDDGEEF F QQIETNFQP EGDFSLSGNI EQTISKNLV S GNIKSAVK NS LENDLLM EAM VIALDS NNER LKESV KNAYF AKYG SKSSLS RIL YSISKRE VD DLVENLDV S QWKFISKAI QNLYPNDIAQ RNEMLIKLG D RLKENGHR QD SLTLYLA AGS LDKVAS IWLS EFPDL EDKLK KDNK TIYEAH SEC LTEFIER FT VFSNFING S STINNEQLI AKFLEFINLT TSTGNFELA T EFLNSLPS DN EEVKTEK ARV LIASGK SLPA QNPAT ATTSK AKYT NAKTNK NVP VLPTPGM PS TTSIPSMQ A PFYGMTPGA SANALPPKPY VPATTTSAP V HTEGKYAP PS QPSMASP FVN KTNSST RLNS FAPPP NPYAT ATVP ATNVST TSI PQNTFAP IQ PGMPIMGD Y NAQSSSIPS QPPINAVSGQ TPHLNRKAN D GWNDLPLK VK EKPSRAK AVS VAPPNI LSTP TPLNG IPANA ASTM PPPPLS RAP SSVSMVS PP PLHKNSRV P SLVATSESP RASISNPYAP PQSSQQFPI G TISTANQT SN TAQVASS NPY APPPQQ RVAT PLSGG VPPAP LPKA SNPYAP TAT TQPNGSS YP PTGPYTNN H TMTSPPPVF NKPPTGPPPI SMKKRSNKL A SIEQNPSQ GA TYPPTLS SSA SPLQPS QPPT LASQV NTSAE NVSH EIPADQ QPI VDFLKEE LA RVTPLTPK E YSKQLKDCD KRLKILFYHL EKQDLLTQP T IDCLHDLV AL MKEKKYK EAM VIHANI ATNH AQEGG NWLTG VKRL IGIAEA TLN |
-Macromolecule #2: Sec13
Macromolecule | Name: Sec13 / type: protein_or_peptide / ID: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: MVVIANAHNE LIHDAVLDY Y GKRLATCS SD KTIKIFE VEG ETHKLI DTLT GHEGP VWRVD WAHP KFGTIL ASC SYDGKVL IW KEENGRWS Q IAVHAVHSA SVNSVQWAPH EYGPLLLVA S SDGKVSVV EF KENGTTS PII IDAHAI GVNS ASWAP ...String: MVVIANAHNE LIHDAVLDY Y GKRLATCS SD KTIKIFE VEG ETHKLI DTLT GHEGP VWRVD WAHP KFGTIL ASC SYDGKVL IW KEENGRWS Q IAVHAVHSA SVNSVQWAPH EYGPLLLVA S SDGKVSVV EF KENGTTS PII IDAHAI GVNS ASWAP ATIEE DGEH NGTKES RKF VTGGADN LV KIWKYNSD A QTYVLESTL EGHSDWVRDV AWSPTVLLR S YLASVSQD RT CIIWTQD NEQ GPWKKT LLKE EKFPD VLWRA SWSL SGNVLA LSG GDNKVTL WK ENLEGKWE P AGEVHQ |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | subtomogram averaging |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 6.8 |
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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: FEI FALCON IV (4k x 4k) / Average electron dose: 3.4 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 5.0 µm / Nominal defocus min: 3.0 µm |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |