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Open data
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Basic information
Entry | Database: PDB / ID: 8jun | ||||||
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Title | Cryo-EM structure of SIDT1 E555Q mutant | ||||||
![]() | SID1 transmembrane family member 1 | ||||||
![]() | MEMBRANE PROTEIN / SID-1 transmembrane family member 1 / CREST family / phospholipase D / RNA uptake | ||||||
Function / homology | ![]() RNA transmembrane transporter activity / RNA transport / cholesterol binding / double-stranded RNA binding / lysosome / plasma membrane Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.38 Å | ||||||
![]() | Sun, C.R. / Xu, D. / Li, Q. / Zhou, C.Z. / Chen, Y. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Human SIDT1 mediates dsRNA uptake via its phospholipase activity. Authors: Cai-Rong Sun / Da Xu / Fengrui Yang / Zhuanghao Hou / Yuyao Luo / Chen-Yu Zhang / Ge Shan / Guangming Huang / Xuebiao Yao / Yuxing Chen / Qiong Li / Cong-Zhao Zhou / ![]() | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 254.2 KB | Display | ![]() |
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PDB format | ![]() | 202.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 436.8 KB | Display | ![]() |
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Full document | ![]() | 456.4 KB | Display | |
Data in XML | ![]() | 29.6 KB | Display | |
Data in CIF | ![]() | 44.1 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 36662MC ![]() 8julC M: map data used to model this data C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Components
#1: Protein | Mass: 93922.266 Da / Num. of mol.: 2 / Mutation: E555Q Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() #2: Chemical | #3: Chemical | Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
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Sample preparation
Component | Name: Cryo-EM structure of SIDT1 E555Q mutant / Type: COMPLEX / Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: ![]() |
Source (recombinant) | Organism: ![]() |
Buffer solution | pH: 7.5 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE / Humidity: 100 % / Chamber temperature: 278 K |
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Electron microscopy imaging
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: LAB6 / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 2000 nm / Nominal defocus min: 1500 nm |
Image recording | Electron dose: 50 e/Å2 / Film or detector model: GATAN K3 (6k x 4k) |
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Processing
EM software | Name: PHENIX / Version: 1.16-3549 / Category: model refinement | ||||||||||||||||||||||||
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CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||
3D reconstruction | Resolution: 2.38 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 1098736 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
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