+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-9954 | |||||||||
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Title | Cryo-EM structure of the AtMLKL3 tetramer | |||||||||
Map data | ||||||||||
Sample |
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Keywords | Plant MLKLs / Cryo-EM / Tetramer / MEMBRANE PROTEIN | |||||||||
Function / homology | Function and homology information | |||||||||
Biological species | Arabidopsis thaliana (thale cress) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.4 Å | |||||||||
Authors | Lisa M / Huang M | |||||||||
Citation | Journal: To Be Published Title: Cryo-EM structure of the AtMLKL3 tetramer Authors: Lisa M / Huang M / Zhang X / Ryohei TN / Leila BK / Isabel MLS / Florence J / Viera K / Dmitry L / Jane EP / James MM / Kay H / Paul SL / Chai J / Takaki M | |||||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | EM map: SurfViewMolmilJmol/JSmol |
Supplemental images |
-Downloads & links
-EMDB archive
Map data | emd_9954.map.gz | 3.7 MB | EMDB map data format | |
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Header (meta data) | emd-9954-v30.xml emd-9954.xml | 8.9 KB 8.9 KB | Display Display | EMDB header |
Images | emd_9954.png | 62 KB | ||
Filedesc metadata | emd-9954.cif.gz | 5.1 KB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-9954 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-9954 | HTTPS FTP |
-Validation report
Summary document | emd_9954_validation.pdf.gz | 401.9 KB | Display | EMDB validaton report |
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Full document | emd_9954_full_validation.pdf.gz | 401.5 KB | Display | |
Data in XML | emd_9954_validation.xml.gz | 5.7 KB | Display | |
Data in CIF | emd_9954_validation.cif.gz | 6.5 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-9954 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-9954 | HTTPS FTP |
-Related structure data
Related structure data | 6ka4MC 0868C 6lbaC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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-Map
File | Download / File: emd_9954.map.gz / Format: CCP4 / Size: 30.5 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Voxel size | X=Y=Z: 1.30654 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Sample components
-Entire : Mixed lineage kinase domain-like (MLKL) protein
Entire | Name: Mixed lineage kinase domain-like (MLKL) protein |
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Components |
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-Supramolecule #1: Mixed lineage kinase domain-like (MLKL) protein
Supramolecule | Name: Mixed lineage kinase domain-like (MLKL) protein / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all |
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Source (natural) | Organism: Arabidopsis thaliana (thale cress) |
-Macromolecule #1: F22L4.1 protein
Macromolecule | Name: F22L4.1 protein / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO |
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Source (natural) | Organism: Arabidopsis thaliana (thale cress) |
Molecular weight | Theoretical: 80.046188 KDa |
Recombinant expression | Organism: Spodoptera aff. frugiperda 1 BOLD-2017 (butterflies/moths) |
Sequence | String: MDQFREIGEV LGSIRALMVF KDSIQINQRQ CSLLLDLFTA AYESISVSMR SNLRFKEKNT KWKILEQPLR ELLWVVREGE AYVRMSLEP KLGFWAKAIV LHSNRDCTEL HIHNLLSCLP IIVEAIETAS EVSGWDEEEM SKKRLVHSNK YMKQWNDSQM F TWKFGREY ...String: MDQFREIGEV LGSIRALMVF KDSIQINQRQ CSLLLDLFTA AYESISVSMR SNLRFKEKNT KWKILEQPLR ELLWVVREGE AYVRMSLEP KLGFWAKAIV LHSNRDCTEL HIHNLLSCLP IIVEAIETAS EVSGWDEEEM SKKRLVHSNK YMKQWNDSQM F TWKFGREY LVTEDFCNRF ESAWTEDRWI LIKELQEKKQ SGSSKHERKM ADFLLKHLGD GNESPKLFPS SLLDNTKDYQ VK KRLGNGS QYKEITWLGE SFALRHFFGD IDALLPQITP LLSLSHPNIV YYLCGFTDEE KKECFLVMEL MRKTLGMHIK EVC GPRKKN TLSLPVAVDL MLQIALGMEY LHSKRIYHGE LNPSNILVKP RSNQSGDGYL LGKIFGFGLN SVKGFSSKSA SLTS QNENF PFIWYSPEVL EEQEQSGTAG SLKYSDKSDV YSFGMVSFEL LTGKVPFEDS HLQGDKMSRN IRAGERPLFP FNSPK FITN LTKRCWHADP NQRPTFSSIS RILRYIKRFL ALNPECYSSS QQDPSIAPTV DYCEIETKLL QKLSWESTEL TKVSQV PFQ MFAYRVVERA KTCEKDNLRE PSESGSEWAS CSEDEGGAGS DEQLSYAKER RLSCSSNDVG MSKKQVSNLL KRASSLK PI QKPAFGFCSG TTPRGRSRHP PLSPCGGQSM RANSESQLIL ISPRIRRSNS GHASDSELS UniProtKB: F22L4.1 protein |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 8 |
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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 K2 SUMMIT (4k x 4k) / Average electron dose: 1.5625 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: NONE |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.4 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 983779 |
Initial angle assignment | Type: MAXIMUM LIKELIHOOD |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |