3LCR | pdb_00003lcr

Thioesterase from Tautomycetin Biosynthhetic Pathway

• PDB DOI: https://doi.org/10.2210/pdb3LCR/pdb

• Classification: HYDROLASE
• Organism(s): Streptomyces sp. CK4412
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2010-01-11 Released: 2010-08-18 
• Deposition Author(s): Akey, D.L., Scaglione, J.B., Smith, J.L., Sherman, D.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.233 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.189 (Depositor) 

Literature

Biochemical and structural characterization of the tautomycetin thioesterase: analysis of a stereoselective polyketide hydrolase.

Scaglione, J.B., Akey, D.L., Sullivan, R., Kittendorf, J.D., Rath, C.M., Kim, E.S., Smith, J.L., Sherman, D.H.

(2010) Angew Chem Int Ed Engl 49: 5726-5730

• PubMed: 20623733 
• DOI: https://doi.org/10.1002/anie.201000032
• Primary Citation of Related Structures:  
  3LCR

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Organizational Affiliation: 

Life Sciences Institute, University of Michigan, Ann Arbor, MI 48109, USA.

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: 69.31 kDa 
• Atom Count: 4,417 
• Modelled Residue Count: 551 
• Deposited Residue Count: 638 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tautomycetin biosynthetic PKS	A, B	319	Streptomyces sp. CK4412	Mutation(s): 0  Gene Names: tmcB EC: 3.1.2
UniProt
Find proteins for A4KCE5 (Streptomyces sp. CK4412) Explore A4KCE5  Go to UniProtKB:  A4KCE5

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DMS	C [auth A], E [auth B]	DIMETHYL SULFOXIDE C2 H6 O S IAZDPXIOMUYVGZ-UHFFFAOYSA-N
FMT	D [auth A], F [auth B]	FORMIC ACID C H2 O2 BDAGIHXWWSANSR-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.233 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.189 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.102	α = 90
b = 80.183	β = 103.76
c = 64.706	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
RESOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-08-18 
Deposition Author(s): Akey, D.L., Scaglione, J.B., Smith, J.L., Sherman, D.H.

Revision History  

• Version 1.0: 2010-08-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description
• Version 1.3: 2024-02-21
  Changes: Data collection, Database references, Derived calculations