2I6X

The structure of a predicted HAD-like family hydrolase from Porphyromonas gingivalis.

• PDB DOI:  https://doi.org/10.2210/pdb2I6X/pdb

• Classification: HYDROLASE
• Organism(s): Porphyromonas gingivalis W83
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2006-08-29 Released: 2006-10-10 
• Deposition Author(s): Cuff, M.E., Mussar, K.E., Li, H., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.276 
• R-Value Work: 0.209 
• R-Value Observed: 0.213 

Literature

The structure of a predicted HAD-like family hydrolase from Porphyromonas gingivalis. (CASP Target)

Cuff, M.E., Mussar, K.E., Li, H., Moy, S., Joachimiak, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 24.61 kDa 
• Atom Count: 1,845 
• Modelled Residue Count: 205 
• Deposited Residue Count: 211 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hydrolase, haloacid dehalogenase-like family	A	211	Porphyromonas gingivalis W83	Mutation(s): 6  Gene Names: PG_0725
UniProt
Find proteins for Q7MWA6 (Porphyromonas gingivalis (strain ATCC BAA-308 / W83)) Explore Q7MWA6  Go to UniProtKB:  Q7MWA6

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.276 
• R-Value Work: 0.209 
• R-Value Observed: 0.213 
• Space Group: P 6₂ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 78.727	α = 90
b = 78.727	β = 90
c = 139.879	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-2000	data reduction
HKL-2000	data scaling
HKL-3000	phasing
SHELXD	phasing
SHELXE	model building
MLPHARE	phasing
DM	phasing
SOLVE	phasing
RESOLVE	phasing
ARP/wARP	model building
CCP4	phasing
O	model building
Coot	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-10-10 
Deposition Author(s): Cuff, M.E., Mussar, K.E., Li, H., Moy, S., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2006-10-10
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance