9U9L | pdb_00009u9l

Crystal Structure of the Fluoroacetate Dehalogenase RPA1163 - Trp185Tyr/His280Ala with 2-fluoro-3-phenylpropanoic acid

PDB DOI: https://doi.org/10.2210/pdb9U9L/pdb

Classification: TRANSFERASE
Organism(s): Rhodopseudomonas palustris CGA009
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2025-03-28 Released: 2026-04-01
Deposition Author(s): Huang, H.S., Zhang, Z.M.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.47 Å
R-Value Free:
0.195 (Depositor), 0.216 (DCC)
R-Value Work:
0.171 (Depositor), 0.197 (DCC)
R-Value Observed:
0.172 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 9U9L

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

Literature

A Route to Powerful Biocatalysts: Designing a Gate-based Synergetic Chain through Long-range Conformational Dynamics Analysis

Huang, H.S., Zhang, Z.M.

To be published.

Macromolecule Content

Total Structure Weight: 66.79 kDa
Atom Count: 5,176
Modeled Residue Count: 595
Deposited Residue Count: 596
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fluoroacetate dehalogenase	A, B	298	Rhodopseudomonas palustris CGA009	Mutation(s): 2 Gene Names: RPA1163 EC: 3.8.1.3
UniProt
Find proteins for Q6NAM1 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)) Explore Q6NAM1 Go to UniProtKB: Q6NAM1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6NAM1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
A1ER5 Query on A1ER5	A, B	L-PEPTIDE LINKING	C₁₃ H₁₅ N O₆		ASP

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.47 Å
R-Value Free: 0.195 (Depositor), 0.216 (DCC)
R-Value Work: 0.171 (Depositor), 0.197 (DCC)
R-Value Observed: 0.172 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 41.782	α = 90
b = 79.084	β = 103.717
c = 85.095	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing
Coot	model building

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-04-01

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2026-04-01
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.