4IQZ | pdb_00004iqz

The crystal structure of a large insert in RNA polymerase (RpoC) subunit from E. coli

• PDB DOI: https://doi.org/10.2210/pdb4IQZ/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2013-01-14 Released: 2013-02-13 
• Deposition Author(s): Bhandari, V., Sugiman-Marangos, S.N., Naushad, H.S., Gupta, R.S., Junop, M.S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 
  0.240 (Depositor), 0.241 (DCC) 
• R-Value Work: 
  0.203 (Depositor), 0.205 (DCC) 
• R-Value Observed: 
  0.205 (Depositor) 

Literature

The crystal structure of a large insert in RNA polymerase (RpoC) subunit from E. coli

Bhandari, V., Sugiman-Marangos, S.N., Naushad, H.S., Gupta, R.S., Junop, M.S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 4 assigned by authors and generated by PISA (software)

Biological Assembly 5  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 5 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 140.94 kDa 
• Atom Count: 6,463 
• Modeled Residue Count: 851 
• Deposited Residue Count: 1,250 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-directed RNA polymerase subunit beta'	A, B, C, D, E	250	Escherichia coli K-12	Mutation(s): 1  Gene Names: b3988, JW3951, rpoC, RPOC subunit beta', tabB EC: 2.7.7.6
UniProt
Find proteins for P0A8T7 (Escherichia coli (strain K12)) Explore P0A8T7  Go to UniProtKB:  P0A8T7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IOD	AA [auth B], AB [auth D], BA [auth B], BB [auth D], CA [auth B], CB [auth D], DA [auth B], DB [auth D], EA [auth B], EB [auth D], F [auth A], FA [auth B], FB [auth D], G [auth A], GA [auth B], GB [auth D], H [auth A], HA [auth B], HB [auth D], I [auth A], IA [auth B], IB [auth D], J [auth A], JB [auth D], K [auth A], KA [auth C], L [auth A], LA [auth C], LB [auth E], M [auth A], MA [auth C], MB [auth E], N [auth A], NA [auth C], NB [auth E], O [auth A], OA [auth C], OB [auth E], P [auth A], PA [auth C], Q [auth A], QA [auth C], R [auth A], RA [auth C], S [auth A], SA [auth C], T [auth A], TA [auth C], UA [auth C], W [auth B], X [auth B], XA [auth D], Y [auth B], YA [auth D], Z [auth B], ZA [auth D]	IODIDE ION I XMBWDFGMSWQBCA-UHFFFAOYSA-M
NA	JA [auth B], KB [auth D], PB [auth E], U [auth A], V [auth A], VA [auth C], WA [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C, D, E	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free:  0.240 (Depositor), 0.241 (DCC) 
• R-Value Work:  0.203 (Depositor), 0.205 (DCC) 
• R-Value Observed: 0.205 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 198.06	α = 90
b = 65.63	β = 108.92
c = 81.292	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
PHENIX	model building
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-02-13 
Deposition Author(s): Bhandari, V., Sugiman-Marangos, S.N., Naushad, H.S., Gupta, R.S., Junop, M.S.

Revision History  

• Version 1.0: 2013-02-13
  Type: Initial release
  
• Version 1.1: 2024-11-27
  Changes: Data collection, Database references, Derived calculations, Structure summary