6GOV

Structure of THE RNA POLYMERASE LAMBDA-BASED ANTITERMINATION COMPLEX


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structural Basis for the Action of an All-Purpose Transcription Anti-termination Factor.

Krupp, F.Said, N.Huang, Y.H.Loll, B.Burger, J.Mielke, T.Spahn, C.M.T.Wahl, M.C.

(2019) Mol Cell 74: 143-157.e5

  • DOI: 10.1016/j.molcel.2019.01.016
  • Primary Citation of Related Structures:  
    6GOV

  • PubMed Abstract: 
  • Bacteriophage λN protein, a model anti-termination factor, binds nascent RNA and host Nus factors, rendering RNA polymerase resistant to all pause and termination signals. A 3.7-Å-resolution cryo-electron microscopy structure and structure-informed functional analyses reveal a multi-pronged strategy by which the intrinsically unstructured λN directly modifies RNA polymerase interactions with the nucleic acids and subverts essential functions of NusA, NusE, and NusG to reprogram the transcriptional apparatus ...

    Bacteriophage λN protein, a model anti-termination factor, binds nascent RNA and host Nus factors, rendering RNA polymerase resistant to all pause and termination signals. A 3.7-Å-resolution cryo-electron microscopy structure and structure-informed functional analyses reveal a multi-pronged strategy by which the intrinsically unstructured λN directly modifies RNA polymerase interactions with the nucleic acids and subverts essential functions of NusA, NusE, and NusG to reprogram the transcriptional apparatus. λN repositions NusA and remodels the β subunit flap tip, which likely precludes folding of pause or termination RNA hairpins in the exit tunnel and disrupts termination-supporting interactions of the α subunit C-terminal domains. λN invades and traverses the RNA polymerase hybrid cavity, likely stabilizing the hybrid and impeding pause- or termination-related conformational changes of polymerase. λN also lines upstream DNA, seemingly reinforcing anti-backtracking and anti-swiveling by NusG. Moreover, λN-repositioned NusA and NusE sequester the NusG C-terminal domain, counteracting ρ-dependent termination. Other anti-terminators likely utilize similar mechanisms to enable processive transcription.


    Organizational Affiliation

    Freie Universität Berlin, Laboratory of Structural Biochemistry, Takustraβe 6, 14195 Berlin, Germany; Helmholtz-Zentrum Berlin für Materialien und Energie, Macromolecular Crystallography, Albert-Einstein-Straße 15, 12489 Berlin, Germany. Electronic address: markus.wahl@fu-berlin.de.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription termination/antitermination protein NusAA497Escherichia coli O157:H7Mutation(s): 0 
Gene Names: nusAZ4530ECs4050
UniProt
Find proteins for P0AFF8 (Escherichia coli O157:H7)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription antitermination protein NusBB141Escherichia coli O157:H7Mutation(s): 0 
Gene Names: nusBZ0518ECs0469
UniProt
Find proteins for P0A782 (Escherichia coli O157:H7)
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
30S ribosomal protein S10C [auth E]106Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpsJnusEZ4692ECs4186
UniProt
Find proteins for P0A7R7 (Escherichia coli O157:H7)
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription termination/antitermination protein NusGD [auth G]184Escherichia coli O157:H7Mutation(s): 0 
Gene Names: nusGZ5555ECs4905
UniProt
Find proteins for P0AFG1 (Escherichia coli O157:H7)
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Antitermination protein NE [auth N]110Escherichia virus LambdaMutation(s): 0 
Gene Names: Nlambdap49
UniProt
Find proteins for P03045 (Escherichia phage lambda)
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit alphaF [auth U], G [auth V]329Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoAZ4665ECs4160
EC: 2.7.7.6
UniProt
Find proteins for P0A7Z6 (Escherichia coli O157:H7)
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit omegaH [auth W]91Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoZZ5075ECs4524
EC: 2.7.7.6
UniProt
Find proteins for P0A802 (Escherichia coli O157:H7)
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit betaI [auth X]1342Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoBZ5560ECs4910
EC: 2.7.7.6
UniProt
Find proteins for P0A8V4 (Escherichia coli O157:H7)
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
DNA-directed RNA polymerase subunit beta'J [auth Y]1417Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoCZ5561ECs4911
EC: 2.7.7.6
UniProt
Find proteins for P0A8T8 (Escherichia coli O157:H7)
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Entity ID: 10
MoleculeChainsLengthOrganismImage
DNA (I)K65synthetic construct
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Entity ID: 11
MoleculeChainsLengthOrganismImage
DNA (II)L65synthetic construct
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Entity ID: 12
MoleculeChainsLengthOrganismImage
RNA (TRANSCRIPTION BUBBLE)M [auth R]66synthetic construct
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Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
O [auth Y], P [auth Y]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download Ideal Coordinates CCD File 
N [auth Y]MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB 740

Revision History  (Full details and data files)

  • Version 1.0: 2019-02-13
    Type: Initial release
  • Version 1.1: 2019-02-27
    Changes: Data collection, Database references
  • Version 1.2: 2019-03-06
    Changes: Data collection, Database references
  • Version 1.3: 2019-04-17
    Changes: Data collection, Database references
  • Version 1.4: 2019-12-18
    Changes: Other