4JWV

Crystal Structure of putative short chain enoyl-CoA hydratase from Novosphingobium aromaticivorans DSM 12444

• PDB DOI: https://doi.org/10.2210/pdb4JWV/pdb

• Classification: LYASE
• Organism(s): Novosphingobium aromaticivorans DSM 12444
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-03-27 Released: 2013-05-29 
• Deposition Author(s): Cooper, D.R., Mikolajczak, K., Cymborowski, M., Grabowski, M., Ahmed, M., Stead, M., Hillerich, B., Seidel, R., Zimmerman, M., Bonanno, J.B., Almo, S.C., Minor, W., New York Structural Genomics Research Consortium (NYSGRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.179 
• R-Value Work: 0.141 
• R-Value Observed: 0.143 

Literature

Crystal Structure of putative short chain enoyl-CoA hydratase from Novosphingobium aromaticivorans DSM 12444

Cooper, D.R., Mikolajczak, K., Cymborowski, M., Grabowski, M., Ahmed, M., Stead, M., Hillerich, B., Seidel, R., Zimmerman, M., Bonanno, J.B., Almo, S.C., Minor, W.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 60.64 kDa 
• Atom Count: 4,126 
• Modelled Residue Count: 506 
• Deposited Residue Count: 556 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Short chain enoyl-CoA hydratase	A, B	278	Novosphingobium aromaticivorans DSM 12444	Mutation(s): 0  Gene Names: Saro_1463 EC: 4.2.1.17
UniProt
Find proteins for Q2G8B7 (Novosphingobium aromaticivorans (strain ATCC 700278 / DSM 12444 / CCUG 56034 / CIP 105152 / NBRC 16084 / F199)) Explore Q2G8B7  Go to UniProtKB:  Q2G8B7

Small Molecules

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: 2.10 Å
• R-Value Free: 0.179 
• R-Value Work: 0.141 
• R-Value Observed: 0.143 
• Space Group: P 2₁ 3
• Diffraction Data: https://doi.org/10.18430/M3KW2X

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.311	α = 90
b = 116.311	β = 90
c = 116.311	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
SHELXS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-05-29 
Deposition Author(s): Cooper, D.R., Mikolajczak, K., Cymborowski, M., Grabowski, M., Ahmed, M., Stead, M., Hillerich, B., Seidel, R., Zimmerman, M., Bonanno, J.B., Almo, S.C., Minor, W., New York Structural Genomics Research Consortium (NYSGRC)

Revision History  

• Version 1.0: 2013-05-29
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2022-04-13
  Changes: Database references, Derived calculations, Structure summary
• Version 1.3: 2024-11-20
  Changes: Data collection, Refinement description, Structure summary