2QF9 | pdb_00002qf9

Crystal structure of putative secreted protein DUF305 from Streptomyces coelicolor

• PDB DOI: https://doi.org/10.2210/pdb2QF9/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Streptomyces coelicolor A3(2)
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2007-06-27 Released: 2007-07-17 
• Deposition Author(s): Ramagopal, U.A., Rutter, M., Adams, J., Toro, R., Groshong, C., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.69 Å
• R-Value Free: 
  0.199 (Depositor), 0.202 (DCC) 
• R-Value Work: 
  0.163 (Depositor) 
• R-Value Observed: 
  0.165 (Depositor) 

Literature

Structure of putative secreted protein DUF305 from Streptomyces coelicolor.

Ramagopal, U.A., Rutter, M., Adams, J., Toro, R., Groshong, C., Sauder, J.M., Burley, S.K., Almo, S.C.

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.

Macromolecule Content 

• Total Structure Weight: 41.3 kDa 
• Atom Count: 3,022 
• Modeled Residue Count: 323 
• Deposited Residue Count: 358 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative secreted protein	A, B	179	Streptomyces coelicolor A3(2)	Mutation(s): 14  Gene Names: SCO2239, SC1G2.01c, SCBAC17D6.06c
UniProt
Find proteins for Q8CK01 (Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)) Explore Q8CK01  Go to UniProtKB:  Q8CK01

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	C [auth A], D [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

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: 1.69 Å
• R-Value Free:  0.199 (Depositor), 0.202 (DCC) 
• R-Value Work:  0.163 (Depositor) 
• R-Value Observed: 0.165 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.903	α = 90
b = 52.756	β = 104.43
c = 57.273	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
SHELXD	phasing
SHELXE	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-07-17 
Deposition Author(s): Ramagopal, U.A., Rutter, M., Adams, J., Toro, R., Groshong, C., Sauder, J.M., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2007-07-17
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 1.4: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.5: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.6: 2024-10-30
  Changes: Data collection, Database references, Structure summary