3HHH | pdb_00003hhh

Crystal structure of transcriptional regulator, a member of PadR family, from Enterococcus faecalis V583

• PDB DOI: https://doi.org/10.2210/pdb3HHH/pdb

• Classification: TRANSCRIPTION REGULATOR
• Organism(s): Enterococcus faecalis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-05-15 Released: 2009-06-02 
• Deposition Author(s): Nocek, B., Zhou, M., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 
  0.263 (Depositor), 0.269 (DCC) 
• R-Value Work: 
  0.221 (Depositor), 0.229 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Literature

Crystal structure of transcriptional regulator, a membar of PadR family, from Enterococcus faecalis V583

Nocek, B., Zhou, M., Moy, S., 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 and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 27.47 kDa 
• Atom Count: 1,714 
• Modeled Residue Count: 205 
• Deposited Residue Count: 232 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator, PadR family	A, B	116	Enterococcus faecalis	Mutation(s): 0  Gene Names: EF_1297
UniProt
Find proteins for Q835S6 (Enterococcus faecalis (strain ATCC 700802 / V583)) Explore Q835S6  Go to UniProtKB:  Q835S6

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	D [auth A], E [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
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: 2.70 Å
• R-Value Free:  0.263 (Depositor), 0.269 (DCC) 
• R-Value Work:  0.221 (Depositor), 0.229 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 86.766	α = 90
b = 86.766	β = 90
c = 84.731	γ = 120

Software Package:

Software Name	Purpose
SBC-Collect	data collection
SHELX	model building
Coot	model building
ARP/wARP	model building
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
SHELX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-06-02 
Deposition Author(s): Nocek, B., Zhou, M., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2009-06-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.2: 2024-11-27
  Changes: Data collection, Database references, Derived calculations, Structure summary