3G64 | pdb_00003g64

Crystal structure of putative enoyl-CoA hydratase from Streptomyces coelicolor A3(2)

• PDB DOI: https://doi.org/10.2210/pdb3G64/pdb

• Classification: LYASE
• Organism(s): Streptomyces coelicolor A3(2)
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-02-06 Released: 2009-03-03 
• Deposition Author(s): Kim, Y., Xu, X., Cui, H., Savchenko, A., Edwards, A.M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 
  0.194 (Depositor), 0.190 (DCC) 
• R-Value Work: 
  0.154 (Depositor), 0.149 (DCC) 
• R-Value Observed: 
  0.156 (Depositor) 

Literature

Crystal Structure of Putative Enoyl-CoA Hydratase from Streptomyces coelicolor A3(2)

Kim, Y., Xu, X., Cui, H., Savchenko, A., Edwards, A.M., Joachimiak, A.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly 2  

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 90.64 kDa 
• Atom Count: 7,149 
• Modeled Residue Count: 824 
• Deposited Residue Count: 837 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative enoyl-CoA hydratase	A, B, C	279	Streptomyces coelicolor A3(2)	Mutation(s): 0  Gene Names: SCO5979, SCBAC16H6.14, STBAC16H6.14
UniProt
Find proteins for Q93JE8 (Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)) Explore Q93JE8  Go to UniProtKB:  Q93JE8

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	G [auth B], H [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL	F [auth A], I [auth B], K [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
ZN	D [auth A], E [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
EDO	J [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free:  0.194 (Depositor), 0.190 (DCC) 
• R-Value Work:  0.154 (Depositor), 0.149 (DCC) 
• R-Value Observed: 0.156 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 116.167	α = 90
b = 191.297	β = 90
c = 93.723	γ = 90

Software Package:

Software Name	Purpose
SBC-Collect	data collection
HKL-2000	data collection
HKL-3000	phasing
MLPHARE	phasing
DM	model building
SHELXD	phasing
RESOLVE	model building
Coot	model building
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
DM	phasing
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-03 
Deposition Author(s): Kim, Y., Xu, X., Cui, H., Savchenko, A., Edwards, A.M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2009-03-03
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2024-10-16
  Changes: Data collection, Database references, Derived calculations, Structure summary