+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-11857 | |||||||||
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Title | Structure of the human THO - UAP56 complex (Map B) | |||||||||
Map data | Map B sharpened (Map sharpening B-factor -132 A2) | |||||||||
Sample |
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Keywords | mRNA / nucleocytoplasmic transport / R-loop / gene expression / GENE REGULATION | |||||||||
Function / homology | Function and homology information THO complex / THO complex part of transcription export complex / transcription export complex / primitive hemopoiesis / regulation of mRNA export from nucleus / U6 snRNP / RNA secondary structure unwinding / stem cell division / ATP-dependent protein binding / mRNA 3'-end processing ...THO complex / THO complex part of transcription export complex / transcription export complex / primitive hemopoiesis / regulation of mRNA export from nucleus / U6 snRNP / RNA secondary structure unwinding / stem cell division / ATP-dependent protein binding / mRNA 3'-end processing / ATP-dependent activity, acting on RNA / U4 snRNA binding / RNA export from nucleus / Transport of Mature mRNA derived from an Intron-Containing Transcript / U4 snRNP / RNA Polymerase II Transcription Termination / poly(A)+ mRNA export from nucleus / generation of neurons / spliceosomal complex assembly / monocyte differentiation / blastocyst development / neuron development / RHOBTB2 GTPase cycle / mRNA export from nucleus / U6 snRNA binding / mRNA Splicing - Major Pathway / RNA splicing / central nervous system development / spliceosomal complex / cell morphogenesis / mRNA splicing, via spliceosome / nuclear matrix / mRNA processing / Signaling by CSF1 (M-CSF) in myeloid cells / negative regulation of neuron projection development / regulation of gene expression / RNA helicase activity / nuclear body / RNA helicase / nuclear speck / mRNA binding / apoptotic process / signal transduction / ATP hydrolysis activity / DNA binding / RNA binding / nucleoplasm / ATP binding / identical protein binding / nucleus / cytosol / cytoplasm Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.3 Å | |||||||||
Authors | Hohmann U / Puehringer T | |||||||||
Funding support | Austria, 1 items
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Citation | Journal: Elife / Year: 2020 Title: Structure of the human core transcription-export complex reveals a hub for multivalent interactions. Authors: Thomas Pühringer / Ulrich Hohmann / Laura Fin / Belén Pacheco-Fiallos / Ulla Schellhaas / Julius Brennecke / Clemens Plaschka / Abstract: The export of mRNA from nucleus to cytoplasm requires the conserved and essential transcription and export (TREX) complex (THO-UAP56/DDX39B-ALYREF). TREX selectively binds mRNA maturation marks and ...The export of mRNA from nucleus to cytoplasm requires the conserved and essential transcription and export (TREX) complex (THO-UAP56/DDX39B-ALYREF). TREX selectively binds mRNA maturation marks and licenses mRNA for nuclear export by loading the export factor NXF1-NXT1. How TREX integrates these marks and achieves high selectivity for mature mRNA is poorly understood. Here, we report the cryo-electron microscopy structure of the human THO-UAP56/DDX39B complex at 3.3 Å resolution. The seven-subunit THO-UAP56/DDX39B complex multimerizes into a 28-subunit tetrameric assembly, suggesting that selective recognition of mature mRNA is facilitated by the simultaneous sensing of multiple, spatially distant mRNA regions and maturation marks. Two UAP56/DDX39B RNA helicases are juxtaposed at each end of the tetramer, which would allow one bivalent ALYREF protein to bridge adjacent helicases and regulate the TREX-mRNA interaction. Our structural and biochemical results suggest a conserved model for TREX complex function that depends on multivalent interactions between proteins and mRNA. | |||||||||
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_11857.map.gz | 301.6 MB | EMDB map data format | |
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Header (meta data) | emd-11857-v30.xml emd-11857.xml | 26.5 KB 26.5 KB | Display Display | EMDB header |
Images | emd_11857.png | 31.5 KB | ||
Filedesc metadata | emd-11857.cif.gz | 8.4 KB | ||
Others | emd_11857_additional_1.map.gz | 288.9 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-11857 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-11857 | HTTPS FTP |
-Validation report
Summary document | emd_11857_validation.pdf.gz | 550.8 KB | Display | EMDB validaton report |
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Full document | emd_11857_full_validation.pdf.gz | 550.4 KB | Display | |
Data in XML | emd_11857_validation.xml.gz | 7.3 KB | Display | |
Data in CIF | emd_11857_validation.cif.gz | 8.4 KB | Display | |
Arichive directory | https://ftp.pdbj.org/pub/emdb/validation_reports/EMD-11857 ftp://ftp.pdbj.org/pub/emdb/validation_reports/EMD-11857 | HTTPS FTP |
-Related structure data
Related structure data | 7apkMC C: citing same article (ref.) M: atomic model generated by this map |
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Similar structure data |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_11857.map.gz / Format: CCP4 / Size: 325 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Map B sharpened (Map sharpening B-factor -132 A2) | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.34 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Additional map: Map B unsharpened
File | emd_11857_additional_1.map | ||||||||||||
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Annotation | Map B unsharpened | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
+Entire : THO - UAP56
+Supramolecule #1: THO - UAP56
+Supramolecule #2: THO complex
+Supramolecule #3: Spliceosome RNA helicase DDX39B
+Macromolecule #1: THO complex subunit 1
+Macromolecule #2: THO complex subunit 2
+Macromolecule #3: THO complex subunit 3
+Macromolecule #4: THO complex subunit 5 homolog
+Macromolecule #5: THO complex subunit 6 homolog
+Macromolecule #6: THO complex subunit 7 homolog
+Macromolecule #7: Spliceosome RNA helicase DDX39B
+Macromolecule #8: THOC2 anchor (putative)
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Buffer | pH: 7.9 Component:
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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 (6k x 4k) / Number grids imaged: 2 / Number real images: 26303 / Average exposure time: 3.8 sec. / Average electron dose: 50.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: OTHER / Imaging mode: OTHER |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
+Image processing
-Atomic model buiding 1
Refinement | Space: REAL / Protocol: AB INITIO MODEL |
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Output model | PDB-7apk: |