1Z72 | pdb_00001z72

Structure of a putative transcriptional regulator from Streptococcus pneumoniae

• PDB DOI: https://doi.org/10.2210/pdb1Z72/pdb

• Classification: Transcription Regulator
• Organism(s): Streptococcus pneumoniae TIGR4
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2005-03-23 Released: 2005-05-17 
• Deposition Author(s): Cuff, M.E., Zhou, M., Abdullah, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.45 Å
• R-Value Free: 
  0.167 (Depositor), 0.166 (DCC) 
• R-Value Work: 
  0.151 (Depositor), 0.149 (DCC) 
• R-Value Observed: 
  0.152 (Depositor) 

Literature

Structure of a putative transcriptional regulator from Streptococcus pneumoniae

Cuff, M.E., Zhou, M., Joachimiak, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 52.41 kDa 
• Atom Count: 4,658 
• Modeled Residue Count: 431 
• Deposited Residue Count: 450 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
transcriptional regulator, putative	A, B	225	Streptococcus pneumoniae TIGR4	Mutation(s): 4  Gene Names: SP0716 EC: 3.5.99.2
UniProt
Find proteins for A0A0H2UP67 (Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)) Explore A0A0H2UP67  Go to UniProtKB:  A0A0H2UP67

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACY	C [auth A], E [auth B], F [auth B]	ACETIC ACID C2 H4 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-N
MG	D [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-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: 1.45 Å
• R-Value Free:  0.167 (Depositor), 0.166 (DCC) 
• R-Value Work:  0.151 (Depositor), 0.149 (DCC) 
• R-Value Observed: 0.152 (Depositor) 

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.023	α = 90
b = 122.039	β = 90
c = 46.48	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-2000	data scaling
SHELXD	phasing
SHELXE	model building
MLPHARE	phasing
DM	phasing
SOLVE	phasing
RESOLVE	phasing
O	model building
Coot	model building
CCP4	phasing
ARP/wARP	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-05-17 
Deposition Author(s): Cuff, M.E., Zhou, M., Abdullah, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2005-05-17
  Type: Initial release
  
• Version 1.1: 2007-11-12
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.3: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary