+Open data
-Basic information
Entry | Database: PDB / ID: 7wwb | ||||||
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Title | Choline transporter-like protein 1 | ||||||
Components | Choline transporter-like protein 1 | ||||||
Keywords | TRANSPORT PROTEIN / choline binding / cholesterol binding / transporter | ||||||
Function / homology | Function and homology information ethanolamine transport / Transport of bile salts and organic acids, metal ions and amine compounds / ethanolamine transmembrane transporter activity / choline transmembrane transporter activity / Choline catabolism / choline catabolic process / choline transport / phosphatidylcholine biosynthetic process / antiporter activity / Synthesis of PC ...ethanolamine transport / Transport of bile salts and organic acids, metal ions and amine compounds / ethanolamine transmembrane transporter activity / choline transmembrane transporter activity / Choline catabolism / choline catabolic process / choline transport / phosphatidylcholine biosynthetic process / antiporter activity / Synthesis of PC / transport across blood-brain barrier / transmembrane transport / mitochondrial outer membrane / mitochondrion / extracellular exosome / nucleoplasm / membrane / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 3.86 Å | ||||||
Authors | Chi, X.M. / Zhou, Q. | ||||||
Funding support | China, 1items
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Citation | Journal: Structure / Year: 2022 Title: Rational exploration of fold atlas for human solute carrier proteins. Authors: Tengyu Xie / Ximin Chi / Bangdong Huang / Fangfei Ye / Qiang Zhou / Jing Huang / Abstract: The solute carrier (SLC) superfamily is the largest group of proteins responsible for the transmembrane transport of substances in human cells. It includes more than 400 members that are organized ...The solute carrier (SLC) superfamily is the largest group of proteins responsible for the transmembrane transport of substances in human cells. It includes more than 400 members that are organized into 65 families according to their physiological function and sequence similarity. Different families of SLCs can adopt the same or different folds that determine the mechanism and reflect the evolutionary relationship between SLC members. Analysis of structural data in the literature before this work showed 13 different folds in the SLC superfamily covering 40 families and 343 members. To further study their mechanism, we systematically explored the SLC superfamily to look for more folds. Based on our results, at least three new folds are found for the SLC superfamily, one of which is in the choline-like transporter family (SLC44) and has been experimentally verified. Our work has laid a foundation and provided important insights for the systematic and comprehensive study of the structure and function of SLC. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7wwb.cif.gz | 137.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7wwb.ent.gz | 103.2 KB | Display | PDB format |
PDBx/mmJSON format | 7wwb.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7wwb_validation.pdf.gz | 997.7 KB | Display | wwPDB validaton report |
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Full document | 7wwb_full_validation.pdf.gz | 998.4 KB | Display | |
Data in XML | 7wwb_validation.xml.gz | 27.5 KB | Display | |
Data in CIF | 7wwb_validation.cif.gz | 38.3 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ww/7wwb ftp://data.pdbj.org/pub/pdb/validation_reports/ww/7wwb | HTTPS FTP |
-Related structure data
Related structure data | 32865MC 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: 73369.844 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: SLC44A1, CD92, CDW92, CTL1 / Production host: Homo sapiens (human) / References: UniProt: Q8WWI5 #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 |
-Sample preparation
Component | Name: Choline transporter-like protein 1 in complex with choline Type: CELL / Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: Homo sapiens (human) |
Source (recombinant) | Organism: Homo sapiens (human) |
Buffer solution | pH: 7.4 |
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: SPOT SCAN |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 1900 nm / Nominal defocus min: 1200 nm |
Image recording | Electron dose: 50 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) |
-Processing
Software | Name: PHENIX / Version: 1.14_3260: / Classification: refinement |
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CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION |
3D reconstruction | Resolution: 3.86 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 144295 / Symmetry type: POINT |