7NXG

Wax synthase 1 from Acinetobacter baylyi (AbWSD1) co-crystallized with myristic acid

PDB DOI: https://doi.org/10.2210/pdb7NXG/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Acinetobacter baylyi ADP1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-03-18 Released: 2022-03-30
Deposition Author(s): Vollheyde, K., Kuehnel, K., Lambrecht, F., Kawelke, S., Herrfurth, C., Feussner, I.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.209
R-Value Work: 0.189
R-Value Observed: 0.190

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 2.0 of the entry. See complete history.

Literature

Crystal Structure of the Bifunctional Wax Synthase 1 from Acinetobacter baylyi Suggests a Conformational Change upon Substrate Binding and Formation of Additional Substrate Binding Sites

Vollheyde, K., Kuhnel, K., Lambrecht, F., Kawelke, S., Herrfurth, C., Feussner, I.

(2022) ACS Catal 12: 9753-9765

DOI: https://doi.org/10.1021/acscatal.2c01712

Macromolecule Content

Total Structure Weight: 52.59 kDa
Atom Count: 3,312
Modelled Residue Count: 390
Deposited Residue Count: 463
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
O-acyltransferase WSD	A	463	Acinetobacter baylyi ADP1	Mutation(s): 0 Gene Names: wax-dgaT, ACIAD0832 EC: 2.3.1.20 (PDB Primary Data), 2.3.1.75 (PDB Primary Data)
UniProt
Find proteins for Q8GGG1 (Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)) Explore Q8GGG1 Go to UniProtKB: Q8GGG1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8GGG1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MYR (Subject of Investigation/LOI) Query on MYR Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	MYRISTIC ACID C₁₄ H₂₈ O₂ TUNFSRHWOTWDNC-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.95 Å
R-Value Free: 0.209
R-Value Work: 0.189
R-Value Observed: 0.190
Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 118.32	α = 90
b = 118.32	β = 90
c = 142.56	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PDB_EXTRACT	data extraction
SHELXCD	phasing

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2022-03-30

Deposition Author(s):

Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	--

Revision History (Full details and data files)

Version 1.0: 2022-03-30
Type: Initial release
Version 2.0: 2022-10-12
Changes: Atomic model, Database references, Source and taxonomy

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.