6GOV

Structure of THE RNA POLYMERASE LAMBDA-BASED ANTITERMINATION COMPLEX


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.7 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

  • 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 f ...

    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

    Medizinische Physik und Biophysik, Charité - Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany. Electronic address: christian.spahn@charite.de.,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.,Medizinische Physik und Biophysik, Charité - Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany.,Freie Universität Berlin, Laboratory of Structural Biochemistry, Takustraβe 6, 14195 Berlin, Germany.,Medizinische Physik und Biophysik, Charité - Universitätsmedizin Berlin, Charitéplatz 1, 10117 Berlin, Germany; Max-Planck-Institut für Molekulare Genetik, Microscopy and Cryo-Electron Microscopy Group, Ihnestraße 63-73, 14195 Berlin, Germany.,Max-Planck-Institut für Molekulare Genetik, Microscopy and Cryo-Electron Microscopy Group, Ihnestraße 63-73, 14195 Berlin, Germany.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transcription termination/antitermination protein NusA
A
497Escherichia coli O157:H7Mutation(s): 0 
Gene Names: nusA
Find proteins for P0AFF8 (Escherichia coli O157:H7)
Go to UniProtKB:  P0AFF8
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Transcription antitermination protein NusB
B
141Escherichia coli O157:H7Mutation(s): 0 
Gene Names: nusB
Find proteins for P0A782 (Escherichia coli O157:H7)
Go to UniProtKB:  P0A782
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
30S ribosomal protein S10
E
106Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpsJ (nusE)
Find proteins for P0A7R7 (Escherichia coli O157:H7)
Go to UniProtKB:  P0A7R7
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Transcription termination/antitermination protein NusG
G
184Escherichia coli O157:H7Mutation(s): 0 
Gene Names: nusG
Find proteins for P0AFG1 (Escherichia coli O157:H7)
Go to UniProtKB:  P0AFG1
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Antitermination protein N
N
110Escherichia phage lambdaMutation(s): 0 
Gene Names: N
Find proteins for P03045 (Escherichia phage lambda)
Go to UniProtKB:  P03045
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
DNA-directed RNA polymerase subunit alpha
U, V
329Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoA
EC: 2.7.7.6
Find proteins for P0A7Z6 (Escherichia coli O157:H7)
Go to UniProtKB:  P0A7Z6
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
DNA-directed RNA polymerase subunit omega
W
91Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoZ
EC: 2.7.7.6
Find proteins for P0A802 (Escherichia coli O157:H7)
Go to UniProtKB:  P0A802
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
DNA-directed RNA polymerase subunit beta
X
1342Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoB
EC: 2.7.7.6
Find proteins for P0A8V4 (Escherichia coli O157:H7)
Go to UniProtKB:  P0A8V4
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
DNA-directed RNA polymerase subunit beta'
Y
1417Escherichia coli O157:H7Mutation(s): 0 
Gene Names: rpoC
EC: 2.7.7.6
Find proteins for P0A8T8 (Escherichia coli O157:H7)
Go to UniProtKB:  P0A8T8
Entity ID: 10
MoleculeChainsLengthOrganism
DNA (I)K65synthetic construct
Entity ID: 11
MoleculeChainsLengthOrganism
DNA (II)L65synthetic construct
Entity ID: 12
MoleculeChainsLengthOrganism
RNA (TRANSCRIPTION BUBBLE)R66synthetic construct
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
Y
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
MG
Query on MG

Download SDF File 
Download CCD File 
Y
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.7 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB 740

Revision History 

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