3QNM | pdb_00003qnm

Haloalkane Dehalogenase Family Member from Bacteroides thetaiotaomicron of Unknown Function

• PDB DOI: https://doi.org/10.2210/pdb3QNM/pdb

• Classification: Structural genomics, unknown function
• Organism(s): Bacteroides thetaiotaomicron
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-02-08 Released: 2011-03-30 
• Deposition Author(s): Matthew, M.W., Ramagopal, U.A., Toro, R., Dickey, M., Sauder, J.M., Poulter, C.D., Burley, S.K., Gerlt, J.A., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 
  0.201 (Depositor) 
• R-Value Work: 
  0.166 (Depositor) 
• R-Value Observed: 
  0.168 (Depositor) 

Literature

Haloalkane Dehalogenase Family Member from Bacteroides thetaiotaomicron of Unknown Function

Matthew, M.W., Ramagopal, U.A., Toro, R., Dickey, M., Sauder, J.M., Poulter, C.D., Burley, S.K., Gerlt, J.A., Almo, S.C.

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: 28.92 kDa 
• Atom Count: 2,190 
• Modeled Residue Count: 231 
• Deposited Residue Count: 240 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Haloacid dehalogenase-like hydrolase	A	240	Bacteroides thetaiotaomicron	Mutation(s): 0  Gene Names: BT_2271
UniProt
Find proteins for Q8A5G8 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50)) Explore Q8A5G8  Go to UniProtKB:  Q8A5G8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	C [auth A], D [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
MG	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

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: 1.70 Å
• R-Value Free:  0.201 (Depositor) 
• R-Value Work:  0.166 (Depositor) 
• R-Value Observed: 0.168 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 42.85	α = 90
b = 51.19	β = 90
c = 123.01	γ = 90

Software Package:

Software Name	Purpose
CBASS	data collection
PHENIX	model building
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-03-30 
Deposition Author(s): Matthew, M.W., Ramagopal, U.A., Toro, R., Dickey, M., Sauder, J.M., Poulter, C.D., Burley, S.K., Gerlt, J.A., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2011-03-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2018-11-21
  Changes: Data collection, Structure summary
• Version 1.3: 2021-02-10
  Changes: Database references, Derived calculations, Structure summary
• Version 1.4: 2024-11-27
  Changes: Data collection, Database references, Structure summary