+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-33284 | |||||||||
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Title | Human diastrophic dysplasia sulfate transporter SLC26A2 | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Transporter / sulfate / TRANSPORT PROTEIN | |||||||||
Function / homology | Function and homology information Defective SLC26A2 causes chondrodysplasias / sulfate transmembrane transport / Multifunctional anion exchangers / Transport and synthesis of PAPS / : / sulfate transmembrane transporter activity / oxalate transmembrane transporter activity / chondrocyte proliferation / secondary active sulfate transmembrane transporter activity / solute:inorganic anion antiporter activity ...Defective SLC26A2 causes chondrodysplasias / sulfate transmembrane transport / Multifunctional anion exchangers / Transport and synthesis of PAPS / : / sulfate transmembrane transporter activity / oxalate transmembrane transporter activity / chondrocyte proliferation / secondary active sulfate transmembrane transporter activity / solute:inorganic anion antiporter activity / bicarbonate transmembrane transporter activity / chloride transmembrane transporter activity / microvillus membrane / chondrocyte differentiation / ossification / apical plasma membrane / extracellular exosome / membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.73 Å | |||||||||
Authors | Chi XM / Zhou Q | |||||||||
Funding support | China, 1 items
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Citation | Journal: Dian Zi Xian Wei Xue Bao / Year: 2023 Title: Structure of human diastrophic dysplasia sulfate transporter SLC26A2 Authors: Chi XM / Li XR / Huang BD / Zhou Q | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_33284.map.gz | 35.8 MB | EMDB map data format | |
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Header (meta data) | emd-33284-v30.xml emd-33284.xml | 14 KB 14 KB | Display Display | EMDB header |
Images | emd_33284.png | 68.8 KB | ||
Filedesc metadata | emd-33284.cif.gz | 5.7 KB | ||
Others | emd_33284_half_map_1.map.gz emd_33284_half_map_2.map.gz | 28.6 MB 28.6 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-33284 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-33284 | HTTPS FTP |
-Validation report
Summary document | emd_33284_validation.pdf.gz | 749.5 KB | Display | EMDB validaton report |
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Full document | emd_33284_full_validation.pdf.gz | 749.1 KB | Display | |
Data in XML | emd_33284_validation.xml.gz | 10.9 KB | Display | |
Data in CIF | emd_33284_validation.cif.gz | 12.7 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33284 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33284 | HTTPS FTP |
-Related structure data
Related structure data | 7xlmMC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_33284.map.gz / Format: CCP4 / Size: 38.4 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||
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Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.087 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_33284_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_33284_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : human diastrophic dysplasia sulfate transporter SLC26A2
Entire | Name: human diastrophic dysplasia sulfate transporter SLC26A2 |
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Components |
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-Supramolecule #1: human diastrophic dysplasia sulfate transporter SLC26A2
Supramolecule | Name: human diastrophic dysplasia sulfate transporter SLC26A2 type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 130 KDa |
-Macromolecule #1: Sulfate transporter
Macromolecule | Name: Sulfate transporter / 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: 88.273945 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MADYKDHDGD YKDHDIDYKD DDDKGASSAW SHPQFEKGGG SGGGSGGSAW SHPQFEKGSA AAMSSESKEQ HNVSPRDSAE GNDSYPSGI HLELQRESST DFKQFETNDQ CRPYHRILIE RQEKSDTNFK EFVIKKLQKN CQCSPAKAKN MILGFLPVLQ W LPKYDLKK ...String: MADYKDHDGD YKDHDIDYKD DDDKGASSAW SHPQFEKGGG SGGGSGGSAW SHPQFEKGSA AAMSSESKEQ HNVSPRDSAE GNDSYPSGI HLELQRESST DFKQFETNDQ CRPYHRILIE RQEKSDTNFK EFVIKKLQKN CQCSPAKAKN MILGFLPVLQ W LPKYDLKK NILGDVMSGL IVGILLVPQS IAYSLLAGQE PVYGLYTSFF ASIIYFLLGT SRHISVGIFG VLCLMIGETV DR ELQKAGY DNAHSAPSLG MVSNGSTLLN HTSDRICDKS CYAIMVGSTV TFIAGVYQVA MGFFQVGFVS VYLSDALLSG FVT GASFTI LTSQAKYLLG LNLPRTNGVG SLITTWIHVF RNIHKTNLCD LITSLLCLLV LLPTKELNEH FKSKLKAPIP IELV VVVAA TLASHFGKLH ENYNSSIAGH IPTGFMPPKV PEWNLIPSVA VDAIAISIIG FAITVSLSEM FAKKHGYTVK ANQEM YAIG FCNIIPSFFH CFTTSAALAK TLVKESTGCH TQLSGVVTAL VLLLVLLVIA PLFYSLQKSV LGVITIVNLR GALRKF RDL PKMWSISRMD TVIWFVTMLS SALLSTEIGL LVGVCFSIFC VILRTQKPKS SLLGLVEESE VFESVSAYKN LQIKPGI KI FRFVAPLYYI NKECFKSALY KQTVNPILIK VAWKKAAKRK IKEKVVTLGG IQDEMSVQLS HDPLELHTIV IDCSAIQF L DTAGIHTLKE VRRDYEAIGI QVLLAQCNPT VRDSLTNGEY CKKEEENLLF YSVYEAMAFA EVSKNQKGVC VPNGLSLSS D UniProtKB: Sulfate transporter |
-Macromolecule #2: SULFATE ION
Macromolecule | Name: SULFATE ION / type: ligand / ID: 2 / Number of copies: 2 / Formula: SO4 |
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Molecular weight | Theoretical: 96.063 Da |
Chemical component information | ChemComp-SO4: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.4 |
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Grid | Model: Quantifoil R1.2/1.3 / Material: GOLD |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.3000000000000003 µm / Nominal defocus min: 1.5 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: PDB ENTRY PDB model - PDB ID: |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.73 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 395589 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |