8K59 | pdb_00008k59

The cryo-EM map of TIC-TIEA complex

• PDB DOI: https://doi.org/10.2210/pdb8K59/pdb
• NAKB: 8K59
• EM Map EMD-36898: EMDB EMDataResource

• Classification: TRANSCRIPTION/DNA/RNA
• Organism(s): Escherichia coli K-12, Escherichia phage T4
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-07-21 Released: 2024-11-13 
• Deposition Author(s): Zhang, K.N., Liu, Y., Chen, M., Wang, Y., Lin, W., Li, M., Zhang, X., Gao, Y., Gong, Q., Chen, H., Steve, M., Li, S., Zhang, K., Liu, B.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

TIEA inhibits sigma70-dependent transcriptions, accelerates elongation speed and elevates transcription error

Zhang, K.N., Liu, Y., Chen, M., Wang, Y., Lin, W., Li, M., Zhang, X., Gao, Y., Gong, Q., Chen, H., Steve, M., Li, S., Zhang, K., Liu, B.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 7-mer - A2B1C1D1E1F1 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by (software)

Macromolecule Content 

• Total Structure Weight: 476.27 kDa 
• Atom Count: 32,740 
• Modeled Residue Count: 3,956 
• Deposited Residue Count: 4,022 
• Unique protein chains: 6
• Unique nucleic acid chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta	A [auth C]	1,340	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpoB, groN, nitB, rif, ron, stl, stv, tabD, b3987, JW3950 EC: 2.7.7.6
UniProt
Find proteins for P0A8V2 (Escherichia coli (strain K12)) Explore P0A8V2  Go to UniProtKB:  P0A8V2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta'	B [auth D]	1,363	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpoC, tabB, b3988, JW3951 EC: 2.7.7.6
UniProt
Find proteins for P0A8T7 (Escherichia coli (strain K12)) Explore P0A8T7  Go to UniProtKB:  P0A8T7

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit omega	C [auth E]	76	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpoZ, b3649, JW3624 EC: 2.7.7.6
UniProt
Find proteins for P0A800 (Escherichia coli (strain K12)) Explore P0A800  Go to UniProtKB:  P0A800

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
RNA polymerase sigma factor RpoD	D [auth F]	523	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpoD, alt, b3067, JW3039
UniProt
Find proteins for P00579 (Escherichia coli (strain K12)) Explore P00579  Go to UniProtKB:  P00579

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit alpha	E [auth A], F [auth B]	231	Escherichia coli K-12	Mutation(s): 0  Gene Names: rpoA, pez, phs, sez, b3295, JW3257 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
15 kDa RNA polymerase-binding protein	G	129	Escherichia phage T4	Mutation(s): 0  Gene Names: rpbA, 45.1
UniProt
Find proteins for P07879 (Enterobacteria phage T4) Explore P07879  Go to UniProtKB:  P07879

Entity ID: 7
Molecule	Chains	Length	Organism	Image
DNA (61-MER)	H [auth I]	61	Escherichia coli K-12

Entity ID: 8
Molecule	Chains	Length	Organism	Image
DNA (63-MER)	I [auth H]	63	Escherichia coli K-12

Entity ID: 9
Molecule	Chains	Length	Organism	Image
RNA (5'-R(*AP*GP*GP*UP*A)-3')	J	5	Escherichia coli K-12

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-11-13 
Deposition Author(s): Zhang, K.N., Liu, Y., Chen, M., Wang, Y., Lin, W., Li, M., Zhang, X., Gao, Y., Gong, Q., Chen, H., Steve, M., Li, S., Zhang, K., Liu, B.

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Funding Organization	Location	Grant Number
Other government	China	--

Revision History  

• Version 1.0: 2024-11-13
  Type: Initial release
  
• Version 1.1: 2025-07-16
  Changes: Data collection