+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-36781 | |||||||||
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Title | ABCG25 Wild Type purified with DDM in the apo-state | |||||||||
Map data | ||||||||||
Sample |
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Keywords | ABA / ABCG / plant hormone / TRANSPORT PROTEIN | |||||||||
Function / homology | Protein of unknown function DUF1425 / YcfL-like superfamily / Protein of unknown function (DUF1425) / Prokaryotic membrane lipoprotein lipid attachment site profile. / DUF1425 domain-containing protein Function and homology information | |||||||||
Biological species | Arabidopsis thaliana (thale cress) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.7 Å | |||||||||
Authors | Sun L / Liu X / Ying W / Liao L / Wei H | |||||||||
Funding support | China, 1 items
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Citation | Journal: To Be Published Title: ABCG25 Wild Type purified with DDM in the apo-state Authors: Sun L / Liu X / Ying W / Liao L / Wei H | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_36781.map.gz | 49.6 MB | EMDB map data format | |
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Header (meta data) | emd-36781-v30.xml emd-36781.xml | 12.9 KB 12.9 KB | Display Display | EMDB header |
Images | emd_36781.png | 161.5 KB | ||
Filedesc metadata | emd-36781.cif.gz | 5.3 KB | ||
Others | emd_36781_half_map_1.map.gz emd_36781_half_map_2.map.gz | 48.5 MB 48.5 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-36781 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-36781 | HTTPS FTP |
-Validation report
Summary document | emd_36781_validation.pdf.gz | 745.5 KB | Display | EMDB validaton report |
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Full document | emd_36781_full_validation.pdf.gz | 745.1 KB | Display | |
Data in XML | emd_36781_validation.xml.gz | 11.9 KB | Display | |
Data in CIF | emd_36781_validation.cif.gz | 13.9 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36781 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-36781 | HTTPS FTP |
-Related structure data
Related structure data | 8k0zMC 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_36781.map.gz / Format: CCP4 / Size: 52.7 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: 1.1 Å | ||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_36781_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_36781_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : ABCG25 wild-type from Arabidopsis thaliana purified with DDM
Entire | Name: ABCG25 wild-type from Arabidopsis thaliana purified with DDM |
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Components |
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-Supramolecule #1: ABCG25 wild-type from Arabidopsis thaliana purified with DDM
Supramolecule | Name: ABCG25 wild-type from Arabidopsis thaliana purified with DDM type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Arabidopsis thaliana (thale cress) |
-Macromolecule #1: ABC transporter G family member 25
Macromolecule | Name: ABC transporter G family member 25 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO |
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Source (natural) | Organism: Arabidopsis thaliana (thale cress) |
Molecular weight | Theoretical: 72.983867 KDa |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) |
Sequence | String: MSAFDGVENQ MNGPDSSPRL SQDPREPRSL LSSSCFPITL KFVDVCYRVK IHGMSNDSCN IKKLLGLKQK PSDETRSTEE RTILSGVTG MISPGEFMAV LGPSGSGKST LLNAVAGRLH GSNLTGKILI NDGKITKQTL KRTGFVAQDD LLYPHLTVRE T LVFVALLR ...String: MSAFDGVENQ MNGPDSSPRL SQDPREPRSL LSSSCFPITL KFVDVCYRVK IHGMSNDSCN IKKLLGLKQK PSDETRSTEE RTILSGVTG MISPGEFMAV LGPSGSGKST LLNAVAGRLH GSNLTGKILI NDGKITKQTL KRTGFVAQDD LLYPHLTVRE T LVFVALLR LPRSLTRDVK LRAAESVISE LGLTKCENTV VGNTFIRGIS GGERKRVSIA HELLINPSLL VLDEPTSGLD AT AALRLVQ TLAGLAHGKG KTVVTSIHQP SSRVFQMFDT VLLLSEGKCL FVGKGRDAMA YFESVGFSPA FPMNPADFLL DLA NGVCQT DGVTEREKPN VRQTLVTAYD TLLAPQVKTC IEVSHFPQDN ARFVKTRVNG GGITTCIATW FSQLCILLHR LLKE RRHES FDLLRIFQVV AASILCGLMW WHSDYRDVHD RLGLLFFISI FWGVLPSFNA VFTFPQERAI FTRERASGMY TLSSY FMAH VLGSLSMELV LPASFLTFTY WMVYLRPGIV PFLLTLSVLL LYVLASQGLG LALGAAIMDA KKASTIVTVT MLAFVL TGG YYVNKVPSGM VWMKYVSTTF YCYRLLVAIQ YGSGEEILRM LGCDSKGKQG ASAATSAGCR FVEEEVIGDV GMWTSVG VL FLMFFGYRVL AYLALRRIKH UniProtKB: DUF1425 domain-containing protein |
-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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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: FLOOD BEAM / Imaging mode: DIFFRACTION / 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: INSILICO MODEL |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 172609 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |