5TJJ

Crystal structure of IcIR transcriptional regulator from Alicyclobacillus acidocaldarius

• PDB DOI: https://doi.org/10.2210/pdb5TJJ/pdb

• Classification: TRANSCRIPTION
• Organism(s): Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-10-04 Released: 2016-10-26 
• Deposition Author(s): Michalska, K., Mack, J.C., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.234 
• R-Value Work: 0.190 
• R-Value Observed: 0.192 

Literature

Crystal structure of IcIR transcriptional regulator from Alicyclobacillus acidocaldarius

Michalska, K., Mack, J.C., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 58.14 kDa 
• Atom Count: 3,999 
• Modelled Residue Count: 504 
• Deposited Residue Count: 520 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator, IclR family	A, B	260	Alicyclobacillus acidocaldarius subsp. acidocaldarius DSM 446	Mutation(s): 0  Gene Names: Aaci_0162
UniProt
Find proteins for C8WQP8 (Alicyclobacillus acidocaldarius subsp. acidocaldarius (strain ATCC 27009 / DSM 446 / BCRC 14685 / JCM 5260 / KCTC 1825 / NBRC 15652 / NCIMB 11725 / NRRL B-14509 / 104-IA)) Explore C8WQP8  Go to UniProtKB:  C8WQP8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.234 
• R-Value Work: 0.190 
• R-Value Observed: 0.192 
• Space Group: P 4₁ 2₁ 2
• Diffraction Data: https://doi.org/10.18430/m35tjj

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.38	α = 90
b = 98.38	β = 90
c = 119.485	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing
BUCCANEER	model building

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-10-26 
Deposition Author(s): Michalska, K., Mack, J.C., Clancy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM094585

Revision History  

• Version 1.0: 2016-10-26
  Type: Initial release
  
• Version 1.1: 2017-09-06
  Changes: Author supporting evidence, Derived calculations
• Version 1.2: 2019-12-25
  Changes: Author supporting evidence
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Structure summary