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Open data
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Basic information
Entry | ![]() | |||||||||
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Title | SID1 transmembrane family member 1 | |||||||||
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![]() | VIRAL PROTEIN-IMMUNE SYSTEM COMPLEX / TRANSPORT PROTEIN | |||||||||
Function / homology | RNA transmembrane transporter activity / SID1 transmembrane family / dsRNA-gated channel SID-1 / RNA transport / cholesterol binding / double-stranded RNA binding / lysosome / plasma membrane / SID1 transmembrane family member 1![]() | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.47 Å | |||||||||
![]() | Guo H / Qi C / Lu Y / Yang H / Zhu Y / Sun F / Ji X | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cryo-EM structures of human SID-1 transmembrane family proteins and implications for their low-pH-dependent RNA transport activity. Authors: Le Zheng / Tingting Yang / Hangtian Guo / Chen Qi / Yuchi Lu / Haonan Xiao / Yan Gao / Yue Liu / Yixuan Yang / Mengru Zhou / Henry C Nguyen / Yun Zhu / Fei Sun / Chen-Yu Zhang / Xiaoyun Ji / ![]() | |||||||||
History |
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Structure visualization
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 15.9 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 14.3 KB 14.3 KB | Display Display | ![]() |
Images | ![]() | 32.2 KB | ||
Filedesc metadata | ![]() | 5.4 KB | ||
Others | ![]() ![]() | 15.5 MB 15.5 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 818 KB | Display | ![]() |
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Full document | ![]() | 817.6 KB | Display | |
Data in XML | ![]() | 9.7 KB | Display | |
Data in CIF | ![]() | 11.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8k1bMC ![]() 8k10C ![]() 8k11C ![]() 8k12C ![]() 8k13C ![]() 8k1dC 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
File | ![]() | ||||||||||||||||||||
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Voxel size | X=Y=Z: 1.35 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_36791_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_36791_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
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Sample components
-Entire : human SID1 transmembrane family member 1 (SIDT1) homodimer, ECD f...
Entire | Name: human SID1 transmembrane family member 1 (SIDT1) homodimer, ECD focused refinement |
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Components |
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-Supramolecule #1: human SID1 transmembrane family member 1 (SIDT1) homodimer, ECD f...
Supramolecule | Name: human SID1 transmembrane family member 1 (SIDT1) homodimer, ECD focused refinement type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: SID1 transmembrane family member 1
Macromolecule | Name: SID1 transmembrane family member 1 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 29.089018 KDa |
Recombinant expression | Organism: ![]() ![]() |
Sequence | String: DFDHVYSGVV NLSTENIYSF NYTSQPDQVT AVRVYVNSSS ENLNYPVLVV VRQQKEVLSW QVPLLFQGLY QRSYNYQEVS RTLCPSEAT NETGPLQQLI FVDVASMAPL GAQYKLLVTK LKHFQLRTNV AFHFTASPSQ PQYFLYKFPK DVDSVIIKVV S EMAYPCSV ...String: DFDHVYSGVV NLSTENIYSF NYTSQPDQVT AVRVYVNSSS ENLNYPVLVV VRQQKEVLSW QVPLLFQGLY QRSYNYQEVS RTLCPSEAT NETGPLQQLI FVDVASMAPL GAQYKLLVTK LKHFQLRTNV AFHFTASPSQ PQYFLYKFPK DVDSVIIKVV S EMAYPCSV VSVQNIMCPV YDLDHNVEFN GVYQSMTKKA AITLQKKDFP GEQFFVVFVI KPEDYACGGS FFIQEKENQT WN LQRKKNL EVTIVPS UniProtKB: SID1 transmembrane family member 1 |
-Macromolecule #2: 2-acetamido-2-deoxy-beta-D-glucopyranose
Macromolecule | Name: 2-acetamido-2-deoxy-beta-D-glucopyranose / type: ligand / ID: 2 / Number of copies: 6 / Formula: NAG |
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Molecular weight | Theoretical: 221.208 Da |
Chemical component information | ![]() ChemComp-NAG: |
-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 / Chamber humidity: 100 % / Chamber temperature: 281 K / Instrument: FEI VITROBOT MARK IV |
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Electron microscopy
Microscope | FEI TITAN |
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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: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.2 µm |
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Image processing
Startup model | Type of model: NONE |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.47 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 94868 |
Initial angle assignment | Type: COMMON LINE |
Final angle assignment | Type: COMMON LINE |