4YJY | pdb_00004yjy

Crystal structure of Type III polyketide synthase from Oryza sativa

PDB DOI: https://doi.org/10.2210/pdb4YJY/pdb

Classification: TRANSFERASE
Organism(s): Oryza sativa Indica Group
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-03-03 Released: 2016-02-10
Deposition Author(s): Wongsantichon, J., Robinson, R.C., Yew, W.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.86 Å
R-Value Free:
0.186 (Depositor), 0.188 (DCC)
R-Value Work:
0.159 (Depositor), 0.163 (DCC)
R-Value Observed:
0.160 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 4YJY

This is version 1.1 of the entry. See complete history.

Literature

Synthetic Polyketide Enzymology: Platform for Biosynthesis of Antimicrobial Polyketides

Go, M.K., Wongsantichon, J., Cheung, V.W.N., Chow, J.Y., Robinson, R.C., Yew, W.S.

(2015) ACS Catal 5: 4033-4042

DOI: https://doi.org/10.1021/acscatal.5b00477

Macromolecule Content

Total Structure Weight: 86.58 kDa
Atom Count: 6,479
Modeled Residue Count: 782
Deposited Residue Count: 796
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chalcone synthase 1	A, B	398	Oryza sativa Indica Group	Mutation(s): 0 Gene Names: CHS1, CHS, OsI_035120 EC: 2.3.1.74
UniProt
Find proteins for A2ZEX7 (Oryza sativa subsp. indica) Explore A2ZEX7 Go to UniProtKB: A2ZEX7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A2ZEX7
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.86 Å
R-Value Free: 0.186 (Depositor), 0.188 (DCC)
R-Value Work: 0.159 (Depositor), 0.163 (DCC)
R-Value Observed: 0.160 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.42	α = 90
b = 99.728	β = 90
c = 169.779	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling
HKL-2000	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-02-10

Deposition Author(s):

Wongsantichon, J.

Revision History (Full details and data files)

Version 1.0: 2016-02-10
Type: Initial release
Version 1.1: 2024-03-20
Changes: Data collection, Database references, Derived calculations

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.