+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-33451 | |||||||||
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Title | Cryo-EM structure of SLC19A1 | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Transporter / MEMBRANE PROTEIN | |||||||||
Function / homology | Function and homology information folic acid transmembrane transporter activity / folate:monoatomic anion antiporter activity / methotrexate transport / methotrexate transmembrane transporter activity / folic acid transport / folate transmembrane transport / folate import across plasma membrane / positive regulation of cGAS/STING signaling pathway / cyclic-GMP-AMP transmembrane transporter activity / cyclic-GMP-AMP transmembrane import across plasma membrane ...folic acid transmembrane transporter activity / folate:monoatomic anion antiporter activity / methotrexate transport / methotrexate transmembrane transporter activity / folic acid transport / folate transmembrane transport / folate import across plasma membrane / positive regulation of cGAS/STING signaling pathway / cyclic-GMP-AMP transmembrane transporter activity / cyclic-GMP-AMP transmembrane import across plasma membrane / organic anion transport / 2',3'-cyclic GMP-AMP binding / organic anion transmembrane transporter activity / xenobiotic transmembrane transport / Metabolism of folate and pterines / antiporter activity / folic acid binding / xenobiotic transmembrane transporter activity / transport across blood-brain barrier / folic acid metabolic process / female pregnancy / brush border membrane / basolateral plasma membrane / apical plasma membrane / plasma membrane Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.89 Å | |||||||||
Authors | Zhang MF / Shan YY / Pei DQ | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: Structure of human SLC19A1. Authors: Zhang MF / Shan YY / Pei DQ | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_33451.map.gz | 117.7 MB | EMDB map data format | |
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Header (meta data) | emd-33451-v30.xml emd-33451.xml | 13.8 KB 13.8 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_33451_fsc.xml | 10.5 KB | Display | FSC data file |
Images | emd_33451.png | 71.2 KB | ||
Filedesc metadata | emd-33451.cif.gz | 5.5 KB | ||
Others | emd_33451_half_map_1.map.gz emd_33451_half_map_2.map.gz | 116 MB 116 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-33451 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-33451 | HTTPS FTP |
-Validation report
Summary document | emd_33451_validation.pdf.gz | 861.9 KB | Display | EMDB validaton report |
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Full document | emd_33451_full_validation.pdf.gz | 861.5 KB | Display | |
Data in XML | emd_33451_validation.xml.gz | 19.1 KB | Display | |
Data in CIF | emd_33451_validation.cif.gz | 24.5 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33451 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-33451 | HTTPS FTP |
-Related structure data
Related structure data | 7xtkMC 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_33451.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.849 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_33451_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_33451_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : human SLC19A1
Entire | Name: human SLC19A1 |
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Components |
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-Supramolecule #1: human SLC19A1
Supramolecule | Name: human SLC19A1 / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 60 KDa |
-Macromolecule #1: Reduced folate transporter
Macromolecule | Name: Reduced folate transporter / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 64.926984 KDa |
Recombinant expression | Organism: Homo sapiens (human) |
Sequence | String: MVPSSPAVEK QVPVEPGPDP ELRSWRHLVC YLCFYGFMAQ IRPGESFITP YLLGPDKNFT REQVTNEITP VLSYSYLAVL VPVFLLTDY LRYTPVLLLQ GLSFVSVWLL LLLGHSVAHM QLMELFYSVT MAARIAYSSY IFSLVRPARY QRVAGYSRAA V LLGVFTSS ...String: MVPSSPAVEK QVPVEPGPDP ELRSWRHLVC YLCFYGFMAQ IRPGESFITP YLLGPDKNFT REQVTNEITP VLSYSYLAVL VPVFLLTDY LRYTPVLLLQ GLSFVSVWLL LLLGHSVAHM QLMELFYSVT MAARIAYSSY IFSLVRPARY QRVAGYSRAA V LLGVFTSS VLGQLLVTVG RVSFSTLNYI SLAFLTFSVV LALFLKRPKR SLFFNRDDRG RCETSASELE RMNPGPGGKL GH ALRVACG DSVLARMLRE LGDSLRRPQL RLWSLWWVFN SAGYYLVVYY VHILWNEVDP TTNSARVYNG AADAASTLLG AIT SFAAGF VKIRWARWSK LLIAGVTATQ AGLVFLLAHT RHPSSIWLCY AAFVLFRGSY QFLVPIATFQ IASSLSKELC ALVF GVNTF FATIVKTIIT FIVSDVRGLG LPVRKQFQLY SVYFLILSII YFLGAMLDGL RHCQRGHHPR QPPAQGLRSA AEEKA AQAL SVQDKGLGGL QPAQSPPLSP EDSLGAVGPA SLEQRQSDPY LAQAPAPQAA EFLSPVTTPS PCTLCSAQAS GPEAAD ETC PQLAVHPPGV SKLGLQCLPS DGVQNVNQ UniProtKB: Reduced folate transporter |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.4 / Component - Concentration: 150.0 mM / Component - Formula: NaCl / Component - Name: sodium chloride |
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Grid | Model: Quantifoil R1.2/1.3 / Material: GOLD / Mesh: 300 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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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: FIELD EMISSION GUN |
Electron optics | C2 aperture diameter: 100.0 µm / Illumination mode: SPOT SCAN / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.5 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
+Image processing
-Atomic model buiding 1
Refinement | Protocol: AB INITIO MODEL |
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Output model | PDB-7xtk: |