- EMDB-16832: Structure of the mammalian Pol II-Elongin complex, lacking ELOA l... -
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Basic information
Entry
Database: EMDB / ID: EMD-16832
Title
Structure of the mammalian Pol II-Elongin complex, lacking ELOA latch (Focused map for Pol II stalk, map 7)
Map data
Focused map for Pol II stalk, map 7 postprocess map
Sample
Complex: The Pol II-SPT6-Elongin transcription elongation complex
Protein or peptide: x 16 types
DNA: x 2 types
RNA: x 1 types
Keywords
Transcription elongation / Elongin / RNA polymerase II / TRANSCRIPTION
Function / homology
Function and homology information
regulation of isotype switching / regulation of mRNA export from nucleus / regulation of muscle cell differentiation / RNA Polymerase III Chain Elongation / RNA Polymerase III Transcription Termination / nucleosome organization / regulation of mRNA processing / regulation of transcription by RNA polymerase I / B-WICH complex positively regulates rRNA expression / RNA Polymerase I Transcription Initiation ...regulation of isotype switching / regulation of mRNA export from nucleus / regulation of muscle cell differentiation / RNA Polymerase III Chain Elongation / RNA Polymerase III Transcription Termination / nucleosome organization / regulation of mRNA processing / regulation of transcription by RNA polymerase I / B-WICH complex positively regulates rRNA expression / RNA Polymerase I Transcription Initiation / RNA Polymerase I Promoter Escape / RNA Polymerase I Transcription Termination / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase III Transcription Initiation From Type 2 Promoter / RNA Polymerase III Transcription Initiation From Type 3 Promoter / Cytosolic sensors of pathogen-associated DNA / RNA Polymerase III Transcription Initiation From Type 1 Promoter / RNA Polymerase III Transcription Initiation From Type 2 Promoter / Formation of RNA Pol II elongation complex / Formation of the Early Elongation Complex / Transcriptional regulation by small RNAs / RNA Polymerase II Pre-transcription Events / TP53 Regulates Transcription of DNA Repair Genes / FGFR2 alternative splicing / RNA polymerase II transcribes snRNA genes / mRNA Capping / mRNA Splicing - Major Pathway / mRNA Splicing - Minor Pathway / Processing of Capped Intron-Containing Pre-mRNA / RNA Polymerase II Promoter Escape / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Transcription Initiation / RNA Polymerase II Transcription Elongation / RNA Polymerase II Transcription Initiation And Promoter Clearance / RNA Pol II CTD phosphorylation and interaction with CE / Estrogen-dependent gene expression / Formation of TC-NER Pre-Incision Complex / Dual incision in TC-NER / Gap-filling DNA repair synthesis and ligation in TC-NER / RNA Polymerase III Transcription Initiation From Type 3 Promoter / target-directed miRNA degradation / RNA Polymerase III Abortive And Retractive Initiation / blastocyst formation / elongin complex / VCB complex / Abortive elongation of HIV-1 transcript in the absence of Tat / MicroRNA (miRNA) biogenesis / Cul5-RING ubiquitin ligase complex / FGFR2 alternative splicing / RNA Polymerase I Transcription Termination / Cul2-RING ubiquitin ligase complex / Viral Messenger RNA Synthesis / transcription elongation-coupled chromatin remodeling / Signaling by FGFR2 IIIa TM / RNA Pol II CTD phosphorylation and interaction with CE during HIV infection / RNA Pol II CTD phosphorylation and interaction with CE / Formation of the Early Elongation Complex / Formation of the HIV-1 Early Elongation Complex / mRNA Capping / PIWI-interacting RNA (piRNA) biogenesis / : / HIV Transcription Initiation / RNA Polymerase II HIV Promoter Escape / Transcription of the HIV genome / RNA Polymerase II Promoter Escape / RNA Polymerase II Transcription Pre-Initiation And Promoter Opening / RNA Polymerase II Transcription Initiation / RNA Polymerase II Transcription Initiation And Promoter Clearance / mRNA Splicing - Minor Pathway / site of DNA damage / RNA Polymerase I Transcription Initiation / maintenance of transcriptional fidelity during transcription elongation by RNA polymerase II / organelle membrane / Pausing and recovery of Tat-mediated HIV elongation / Tat-mediated HIV elongation arrest and recovery / transcription by RNA polymerase I / Processing of Capped Intron-Containing Pre-mRNA / HIV elongation arrest and recovery / Pausing and recovery of HIV elongation / RNA polymerase II transcribes snRNA genes / transcription elongation by RNA polymerase I / Tat-mediated elongation of the HIV-1 transcript / mRNA transport / Formation of HIV-1 elongation complex containing HIV-1 Tat / RNA polymerase I complex / RNA polymerase III complex / transcription-coupled nucleotide-excision repair / Formation of HIV elongation complex in the absence of HIV Tat / RNA polymerase III activity / RNA polymerase II, core complex / tRNA transcription by RNA polymerase III / RNA polymerase I activity / RNA Polymerase II Transcription Elongation / RNA polymerase II activity / Formation of RNA Pol II elongation complex / nucleosome binding / translation initiation factor binding / RNA Polymerase II Pre-transcription Events / Inhibition of DNA recombination at telomere / mRNA Splicing - Major Pathway Similarity search - Function
RNA polymerase II subunit D / DNA-directed RNA polymerase II subunit RPB11-a / DNA-directed RNA polymerases I, II, and III subunit RPABC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC3 / DNA-directed RNA polymerase II subunit RPB3 / DNA-directed RNA polymerase subunit beta / RNA polymerase II, I and III subunit K / DNA-directed RNA polymerase II subunit E / DNA-directed RNA polymerase II subunit RPB1 / DNA-directed RNA polymerase II subunit RPB9 ...RNA polymerase II subunit D / DNA-directed RNA polymerase II subunit RPB11-a / DNA-directed RNA polymerases I, II, and III subunit RPABC2 / DNA-directed RNA polymerases I, II, and III subunit RPABC3 / DNA-directed RNA polymerase II subunit RPB3 / DNA-directed RNA polymerase subunit beta / RNA polymerase II, I and III subunit K / DNA-directed RNA polymerase II subunit E / DNA-directed RNA polymerase II subunit RPB1 / DNA-directed RNA polymerase II subunit RPB9 / DNA-directed RNA polymerases I, II, and III subunit RPABC5 / Elongin-A / Elongin-C / Elongin-B / Transcription elongation factor SPT6 Similarity search - Component
Biological species
Homo sapiens (human) / Sus scrofa (pig) / synthetic construct (others)
Method
single particle reconstruction / cryo EM / Resolution: 3.67 Å
Journal: Nat Struct Mol Biol / Year: 2023 Title: Structure of the transcribing RNA polymerase II-Elongin complex. Authors: Ying Chen / Goran Kokic / Christian Dienemann / Olexandr Dybkov / Henning Urlaub / Patrick Cramer / Abstract: Elongin is a heterotrimeric elongation factor for RNA polymerase (Pol) II transcription that is conserved among metazoa. Here, we report three cryo-EM structures of human Elongin bound to ...Elongin is a heterotrimeric elongation factor for RNA polymerase (Pol) II transcription that is conserved among metazoa. Here, we report three cryo-EM structures of human Elongin bound to transcribing Pol II. The structures show that Elongin subunit ELOA binds the RPB2 side of Pol II and anchors the ELOB-ELOC subunit heterodimer. ELOA contains a 'latch' that binds between the end of the Pol II bridge helix and funnel helices, thereby inducing a conformational change near the polymerase active center. The latch is required for the elongation-stimulatory activity of Elongin, but not for Pol II binding, indicating that Elongin functions by allosterically regulating the conformational mobility of the polymerase active center. Elongin binding to Pol II is incompatible with association of the super elongation complex, PAF1 complex and RTF1, which also contain an elongation-stimulatory latch element.
Entire : The Pol II-SPT6-Elongin transcription elongation complex
Entire
Name: The Pol II-SPT6-Elongin transcription elongation complex
Components
Complex: The Pol II-SPT6-Elongin transcription elongation complex
Protein or peptide: RPB1
Protein or peptide: RPB2
Protein or peptide: RPB3
Protein or peptide: RPB4
Protein or peptide: RPB5
Protein or peptide: RPB6
Protein or peptide: RPB7
Protein or peptide: RPB8
Protein or peptide: RPB9
Protein or peptide: DNA-directed RNA polymerases I, II, and III subunit RPABC5
Protein or peptide: DNA-directed RNA polymerase II subunit RPB11-a
Protein or peptide: RNA polymerase II subunit K
Protein or peptide: SPT6H
Protein or peptide: ELOA1
Protein or peptide: ELOB
Protein or peptide: ELOC
DNA: Non-template DNA
DNA: Template DNA
RNA: RNA
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Supramolecule #1: The Pol II-SPT6-Elongin transcription elongation complex
Supramolecule
Name: The Pol II-SPT6-Elongin transcription elongation complex type: complex / ID: 1 / Parent: 0 / Macromolecule list: all Details: The map is generated from a sub-class of a Cryo-EM dataset for the Pol II-SPT6-Elongin complex.
Model: Quantifoil R3.5/1 / Material: COPPER / Mesh: 200 / Support film - Material: CARBON / Support film - topology: CONTINUOUS / Support film - Film thickness: 2.1
Vitrification
Cryogen name: ETHANE / Instrument: FEI VITROBOT MARK IV
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Electron microscopy
Microscope
FEI TITAN KRIOS
Image recording
Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 40.09 e/Å2
Electron beam
Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
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