+Open data
-Basic information
Entry | Database: PDB / ID: 8x5b | ||||||
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Title | Cryo-EM structures of human XPR1 in closed states | ||||||
Components | Solute carrier family 53 member 1 | ||||||
Keywords | TRANSPORT PROTEIN / transport | ||||||
Function / homology | Function and homology information : / phosphate ion transport / intracellular phosphate ion homeostasis / inositol hexakisphosphate binding / phosphate ion transmembrane transport / cellular response to phosphate starvation / efflux transmembrane transporter activity / response to virus / trans-Golgi network / virus receptor activity ...: / phosphate ion transport / intracellular phosphate ion homeostasis / inositol hexakisphosphate binding / phosphate ion transmembrane transport / cellular response to phosphate starvation / efflux transmembrane transporter activity / response to virus / trans-Golgi network / virus receptor activity / Golgi apparatus / plasma membrane / cytoplasm Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.84 Å | ||||||
Authors | Jiang, D.H. / Yan, R. | ||||||
Funding support | China, 1items
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Citation | Journal: To Be Published Title: STRUCTURE OF TRANSPORT Authors: Jiang, D.H. / Yan, R. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8x5b.cif.gz | 186.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb8x5b.ent.gz | 144.3 KB | Display | PDB format |
PDBx/mmJSON format | 8x5b.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8x5b_validation.pdf.gz | 1.9 MB | Display | wwPDB validaton report |
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Full document | 8x5b_full_validation.pdf.gz | 1.9 MB | Display | |
Data in XML | 8x5b_validation.xml.gz | 43.2 KB | Display | |
Data in CIF | 8x5b_validation.cif.gz | 58.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/x5/8x5b ftp://data.pdbj.org/pub/pdb/validation_reports/x5/8x5b | HTTPS FTP |
-Related structure data
Related structure data | 38065MC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
#1: Protein | Mass: 54831.422 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: XPR1 / Cell line (production host): HEK293 / Production host: Homo sapiens (human) / References: UniProt: Q9UBH6 #2: Chemical | ChemComp-PO4 / #3: Chemical | ChemComp-POV / ( #4: Chemical | #5: Water | ChemComp-HOH / | 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 |
-Sample preparation
Component | Name: transport / Type: COMPLEX / Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: Homo sapiens (human) |
Source (recombinant) | Organism: Homo sapiens (human) |
Buffer solution | pH: 7.5 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE |
-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: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 2000 nm / Nominal defocus min: 1000 nm |
Image recording | Electron dose: 60 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) |
-Processing
CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION |
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3D reconstruction | Resolution: 2.84 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 253874 / Symmetry type: POINT |