6N4C

EM structure of the DNA wrapping in bacterial open transcription initiation complex

• PDB DOI: https://doi.org/10.2210/pdb6N4C/pdb
• EM Map EMD-0340: EMDB EMDataResource
• NAKB: 6N4C

• Classification: transcription/dna
• Organism(s): Escherichia coli K-12, Lambdavirus lambda
• Mutation(s): No 


• Deposited: 2018-11-19 Released: 2020-05-27 
• Deposition Author(s): Florez-Ariza, A., Cassago, A., de Oliveira, P.S.L., Guerra, D.G., Portugal, R.V.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 17.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Interactions of Upstream and Downstream Promoter Regions with RNA Polymerase are Energetically Coupled and a Target of Regulation in Transcription Initiation

Sosa, R., Florez-Ariza, A., Diaz-Celis, C., Onoa, B., Cassago, A., de Oliveira, P.S.L., Portugal, R.V., Guerra, D.G., Bustamante, C.

(2020) Biorxiv 

• DOI: https://doi.org/10.1101/2020.05.13.070375

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 6-mer - A2B1C1D1E1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: native gel electrophoresis, microscopy

Macromolecule Content

• Total Structure Weight: 503.11 kDa 
• Atom Count: 35,052 
• Modelled Residue Count: 4,161 
• Deposited Residue Count: 4,161 
• Unique protein chains: 6
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA polymerase sigma factor RpoD	A [auth F]	558	Escherichia coli K-12	Mutation(s): 0
UniProt
Find proteins for P00579 (Escherichia coli (strain K12)) Explore P00579  Go to UniProtKB:  P00579

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta	B [auth C]	1,341	Escherichia coli K-12	Mutation(s): 0  EC: 2.7.7.6
UniProt
Find proteins for P0A8V2 (Escherichia coli (strain K12)) Explore P0A8V2  Go to UniProtKB:  P0A8V2

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta'	C [auth D]	1,358	Escherichia coli K-12	Mutation(s): 0  EC: 2.7.7.6
UniProt
Find proteins for P0A8T7 (Escherichia coli (strain K12)) Explore P0A8T7  Go to UniProtKB:  P0A8T7

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit alpha	D [auth A]	316	Escherichia coli K-12	Mutation(s): 0  EC: 2.7.7.6
UniProt
Find proteins for P0A7Z4 (Escherichia coli (strain K12)) Explore P0A7Z4  Go to UniProtKB:  P0A7Z4

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit alpha	E [auth B]	310	Escherichia coli K-12	Mutation(s): 0  EC: 2.7.7.6
UniProt
Find proteins for P0A7Z4 (Escherichia coli (strain K12)) Explore P0A7Z4  Go to UniProtKB:  P0A7Z4

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit omega	F [auth E]	90	Escherichia coli K-12	Mutation(s): 0  EC: 2.7.7.6
UniProt
Find proteins for P0A800 (Escherichia coli (strain K12)) Explore P0A800  Go to UniProtKB:  P0A800

Entity ID: 7
Molecule	Chains	Length	Organism	Image
DNA (94-MER)	G [auth a]	94	Lambdavirus lambda

Entity ID: 8
Molecule	Chains	Length	Organism	Image
DNA (94-MER)	H [auth b]	94	Lambdavirus lambda

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 17.0 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	IMAGIC

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-05-27 
Deposition Author(s): Florez-Ariza, A., Cassago, A., de Oliveira, P.S.L., Guerra, D.G., Portugal, R.V.

Revision History  

• Version 1.0: 2020-05-27
  Type: Initial release