+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-31484 | |||||||||
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Title | Cryo-EM structure of human TMEM120B | |||||||||
Map data | ||||||||||
Sample |
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Function / homology | Function and homology information protein heterooligomerization / nuclear inner membrane / fat cell differentiation / monoatomic ion transmembrane transport / bioluminescence / generation of precursor metabolites and energy / membrane => GO:0016020 / membrane Similarity search - Function | |||||||||
Biological species | Anaplasma marginale (bacteria) / Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 4.0 Å | |||||||||
Authors | Ke M / Wu J / Yan Z | |||||||||
Citation | Journal: Cell Discov / Year: 2021 Title: Cryo-EM structures of human TMEM120A and TMEM120B. Authors: Meng Ke / Yue Yu / Changjian Zhao / Shirong Lai / Qiang Su / Weidan Yuan / Lina Yang / Dong Deng / Kun Wu / Weizheng Zeng / Jia Geng / Jianping Wu / Zhen Yan / | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_31484.map.gz | 38.2 MB | EMDB map data format | |
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Header (meta data) | emd-31484-v30.xml emd-31484.xml | 13.9 KB 13.9 KB | Display Display | EMDB header |
Images | emd_31484.png | 101.2 KB | ||
Others | emd_31484_half_map_1.map.gz emd_31484_half_map_2.map.gz | 37.5 MB 37.5 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-31484 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-31484 | HTTPS FTP |
-Related structure data
Related structure data | 7f73MC 7cxrC C: citing same article (ref.) M: atomic model generated by this map |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_31484.map.gz / Format: CCP4 / Size: 40.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Voxel size | X=Y=Z: 1.087 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Half map: #2
File | emd_31484_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_31484_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Dimeric human TMEM120B
Entire | Name: Dimeric human TMEM120B |
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Components |
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-Supramolecule #1: Dimeric human TMEM120B
Supramolecule | Name: Dimeric human TMEM120B / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Anaplasma marginale (bacteria) |
Recombinant expression | Organism: Homo sapiens (human) |
-Macromolecule #1: MCherry fluorescent protein,Transmembrane protein 120B
Macromolecule | Name: MCherry fluorescent protein,Transmembrane protein 120B type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 72.284109 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MDYKDDDDKG SDYKDDDDKG SDYKDDDDKG SDEVDAMVSK GEEDNMAIIK EFMRFKVHME GSVNGHEFEI EGEGEGRPYE GTQTAKLKV TKGGPLPFAW DILSPQFMYG SKAYVKHPAD IPDYLKLSFP EGFKWERVMN FEDGGVVTVT QDSSLQDGEF I YKVKLRGT ...String: MDYKDDDDKG SDYKDDDDKG SDYKDDDDKG SDEVDAMVSK GEEDNMAIIK EFMRFKVHME GSVNGHEFEI EGEGEGRPYE GTQTAKLKV TKGGPLPFAW DILSPQFMYG SKAYVKHPAD IPDYLKLSFP EGFKWERVMN FEDGGVVTVT QDSSLQDGEF I YKVKLRGT NFPSDGPVMQ KKTMGWEASS ERMYPEDGAL KGEIKQRLKL KDGGHYDAEV KTTYKAKKPV QLPGAYNVNI KL DITSHNE DYTIVEQYER AEGRHSTGGM DELYKLEVLF QGPEFMSGQL ERCEREWHEL EGEFQELQET HRIYKQKLEE LAA LQTLCS SSISKQKKHL KDLKLTLQRC KRHASREEAE LVQQMAANIK ERQDVFFDME AYLPKKNGLY LNLVLGNVNV TLLS NQAKF AYKDEYEKFK LYLTIILLLG AVACRFVLHY RVTDEVFNFL LVWYYCTLTI RESILISNGS RIKGWWVSHH YVSTF LSGV MLTWPNGPIY QKFRNQFLAF SIFQSCVQFL QYYYQRGCLY RLRALGERNH LDLTVEGFQS WMWRGLTFLL PFLFCG HFW QLYNAVTLFE LSSHEECREW QVFVLAFTFL ILFLGNFLTT LKVVHAKLQK NRGKTKQP |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy |
Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: EMDB MAP EMDB ID: |
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Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 4.0 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 137998 |