9CGO

Tylosin thioesterase domain (TylG5 TE)

PDB DOI: https://doi.org/10.2210/pdb9CGO/pdb

Classification: HYDROLASE
Organism(s): Streptomyces fradiae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-06-30 Released: 2024-09-18
Deposition Author(s): Smith, J.L., Choudhary, V.
Funding Organization(s): National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.93 Å
R-Value Free: 0.210
R-Value Work: 0.176
R-Value Observed: 0.178

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Substrate Trapping in Polyketide Synthase Thioesterase Domains: Structural Basis for Macrolactone Formation

McCullough, T.M., Choudhary, V., Akey, D.L., Skiba, M.A., Bernard, S.M., Kittendorf, J.D., Schmidt, J.J., Sherman, D.H., Smith, J.L.

(2024) ACS Catal 14

DOI: https://doi.org/10.1021/acscatal.4c03637

Macromolecule Content

Total Structure Weight: 59.68 kDa
Atom Count: 4,209
Modelled Residue Count: 541
Deposited Residue Count: 562
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tylactone synthase module 7	A, B	281	Streptomyces fradiae	Mutation(s): 0 Gene Names: tylG
UniProt
Find proteins for O33958 (Streptomyces fradiae) Explore O33958 Go to UniProtKB: O33958
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O33958
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.93 Å
R-Value Free: 0.210
R-Value Work: 0.176
R-Value Observed: 0.178
Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 56.88	α = 90
b = 56.88	β = 90
c = 292.47	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
MOSFLM	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Released Date: 2024-09-18

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of Diabetes and Digestive and Kidney Disease (NIH/NIDDK)	United States	R01 DK042303

Revision History (Full details and data files)

Version 1.0: 2024-09-18
Type: Initial release

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.