3GL5 | pdb_00003gl5

Crystal structure of probable DsbA oxidoreductase SCO1869 from Streptomyces coelicolor

• PDB DOI: https://doi.org/10.2210/pdb3GL5/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Streptomyces coelicolor A3(2)
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-03-11 Released: 2009-03-31 
• Deposition Author(s): Chang, C., 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: 2.15 Å
• R-Value Free: 
  0.246 (Depositor), 0.254 (DCC) 
• R-Value Work: 
  0.200 (Depositor), 0.207 (DCC) 
• R-Value Observed: 
  0.202 (Depositor) 

Literature

Crystal structure of probable DsbA oxidoreductase SCO1869 from Streptomyces coelicolor

Chang, C., Xu, X., Cui, H., Savchenko, A., Edwards, A.M., 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: 26.23 kDa 
• Atom Count: 2,054 
• Modeled Residue Count: 234 
• Deposited Residue Count: 239 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative DsbA oxidoreductase SCO1869	A	239	Streptomyces coelicolor A3(2)	Mutation(s): 0  Gene Names: SCO1869, SCI39.16c
UniProt
Find proteins for Q93RV7 (Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)) Explore Q93RV7  Go to UniProtKB:  Q93RV7

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ACT	C [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M
NA	B [auth A]	SODIUM ION Na FKNQFGJONOIPTF-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: 2.15 Å
• R-Value Free:  0.246 (Depositor), 0.254 (DCC) 
• R-Value Work:  0.200 (Depositor), 0.207 (DCC) 
• R-Value Observed: 0.202 (Depositor) 

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.36	α = 90
b = 60.36	β = 90
c = 132.761	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-03-31 
Deposition Author(s): Chang, C., Xu, X., Cui, H., Savchenko, A., Edwards, A.M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2009-03-31
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Refinement description, Version format compliance
• Version 1.2: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary