4LZL

Structure of the inactive form of the regulatory domain from the repressor of iron transport regulator (RitR)

• PDB DOI: https://doi.org/10.2210/pdb4LZL/pdb

• Classification: TRANSCRIPTION
• Organism(s): Streptococcus pneumoniae 2061617
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-07-31 Released: 2014-09-17 
• Deposition Author(s): Silvaggi, N.R., Han, L., Ulijasz, A.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 
  0.161 (Depositor), 0.160 (DCC) 
• R-Value Work: 
  0.141 (Depositor), 0.140 (DCC) 
• R-Value Observed: 
  0.143 (Depositor) 

Starting Model: experimental

Literature

Defining the Aspartate-Less Receiver (ALR) Domains: Structure and Activation of RitR from Streptococcus pneumoniae

Maule, A.F., Weiner, J.J., Han, L., Wright, D.P., Peterson, F.C., Volkman, B.F., Silvaggi, N.R., Ulijasz, A.T.

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)

Macromolecule Content

• Total Structure Weight: 14.56 kDa 
• Atom Count: 1,300 
• Modelled Residue Count: 123 
• Deposited Residue Count: 124 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Response regulator	A	124	Streptococcus pneumoniae 2061617	Mutation(s): 0  Gene Names: AMCSP02_000425, RitR

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free:  0.161 (Depositor), 0.160 (DCC) 
• R-Value Work:  0.141 (Depositor), 0.140 (DCC) 
• R-Value Observed: 0.143 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 28.46	α = 92.65
b = 33.84	β = 103.71
c = 34.96	γ = 97.53

Software Package:

Software Name	Purpose
MD2	data collection
PHASER	phasing
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-09-17 
Deposition Author(s): Silvaggi, N.R., Han, L., Ulijasz, A.T.

Revision History  

• Version 1.0: 2014-09-17
  Type: Initial release
  
• Version 1.1: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description