4MKR

Structure of the apo form of a Zingiber officinale double bond reductase

PDB DOI: https://doi.org/10.2210/pdb4MKR/pdb

Classification: PLANT PROTEIN
Organism(s): Zingiber officinale
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2013-09-05 Released: 2014-09-10
Deposition Author(s): Buratto, J., Langlois d'Estaintot, B., Granier, T., Gallois, B., Willis, M.A., Sang, Y., Flores-Sanchez, I.J., Gang, D.R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.58 Å
R-Value Free: 0.282
R-Value Work: 0.228
R-Value Observed: 0.231

wwPDB Validation 3D Report Full Report

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

Literature

Structure of Zingiber officinale double bond reductase

Buratto, J., Langlois d'Estaintot, B., Granier, T., Gallois, B., Willis, M.A., Sang, Y., Flores-Sanchez, I.J., Gang, D.R.

To be published.

Macromolecule Content

Total Structure Weight: 159.96 kDa
Atom Count: 9,244
Modelled Residue Count: 1,213
Deposited Residue Count: 1,432
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Zingiber officinale double bond reductase	A, B, C, D	358	Zingiber officinale	Mutation(s): 0
UniProt
Find proteins for A0A096LNF0 (Zingiber officinale) Explore A0A096LNF0 Go to UniProtKB: A0A096LNF0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A096LNF0
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.58 Å
R-Value Free: 0.282
R-Value Work: 0.228
R-Value Observed: 0.231
Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.93	α = 80.15
b = 76.34	β = 89.97
c = 93.45	γ = 85.66

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
MxCuBE	data collection
XDS	data reduction

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2014-09-10

Deposition Author(s):

Langlois d'Estaintot, B.

Flores-Sanchez, I.J.

Revision History (Full details and data files)

Version 1.0: 2014-09-10
Type: Initial release
Version 1.1: 2023-09-20
Changes: Data collection, Database references, Refinement description

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.