7AD2 | pdb_00007ad2

Linalool Dehydratase Isomerase G107T mutant

PDB DOI: https://doi.org/10.2210/pdb7AD2/pdb

Classification: LYASE
Organism(s): Castellaniella defragrans
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2020-09-14 Released: 2021-10-06
Deposition Author(s): Cuetos, A., Fischer, M.P., Hauer, B., Grogan, G.
Funding Organization(s): Biotechnology and Biological Sciences Research Council (BBSRC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.83 Å
R-Value Free:
0.240 (Depositor), 0.245 (DCC)
R-Value Work:
0.214 (Depositor), 0.221 (DCC)
R-Value Observed:
0.215 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 7AD2

This is version 1.2 of the entry. See complete history.

Literature

Linalool Dehydratase Isomerase G107T mutant

Cuetos, A., Fischer, M.P., Hauer, B., Grogan, G.

To be published.

Macromolecule Content

Total Structure Weight: 210.39 kDa
Atom Count: 16,023
Modeled Residue Count: 1,824
Deposited Residue Count: 1,860
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Linalool dehydratase/isomerase	A, B, C, D, E	372	Castellaniella defragrans	Mutation(s): 1 Gene Names: ldi EC: 4.2.1.127 (PDB Primary Data), 5.4.4.4 (PDB Primary Data)
UniProt
Find proteins for E1XUJ2 (Castellaniella defragrans (strain DSM 12143 / CCUG 39792 / 65Phen)) Explore E1XUJ2 Go to UniProtKB: E1XUJ2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	E1XUJ2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MLI Query on MLI Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain G [auth D] MOL2 format, chain F [auth B] MOL2 format, chain G [auth D] mmCIF format, chain F [auth B] mmCIF format, chain G [auth D]	F [auth B], G [auth D]	MALONATE ION C₃ H₂ O₄ OFOBLEOULBTSOW-UHFFFAOYSA-L		Interactions Focus chain F [auth B] Focus chain G [auth D] Interactions & Density Focus chain F [auth B] Focus chain G [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.83 Å
R-Value Free: 0.240 (Depositor), 0.245 (DCC)
R-Value Work: 0.214 (Depositor), 0.221 (DCC)
R-Value Observed: 0.215 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 221.984	α = 90
b = 110.763	β = 117.98
c = 108.59	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2021-10-06

Deposition Author(s):

Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/P005578/1

Revision History (Full details and data files)

Version 1.0: 2021-10-06
Type: Initial release
Version 1.1: 2024-01-31
Changes: Data collection, Refinement description
Version 1.2: 2024-10-16
Changes: Structure summary

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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.