5FR9 | pdb_00005fr9

Structure of transaminase ATA-117 arRmut11 from Arthrobacter sp. KNK168 inhibited with 1-(4-Bromophenyl)-2-fluoroethylamine

PDB DOI: https://doi.org/10.2210/pdb5FR9/pdb

Classification: TRANSFERASE
Organism(s): Arthrobacter sp.
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2015-12-16 Released: 2016-03-02
Deposition Author(s): Cuetos, A., Kroutil, W., Lavandera, I., Grogan, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.81 Å
R-Value Free:
0.239 (Depositor), 0.241 (DCC)
R-Value Work:
0.210 (Depositor), 0.214 (DCC)
R-Value Observed:
0.212 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Catalytic Promiscuity of Transaminases: Preparation of Enantioenriched Beta-Fluoroamines by Formal Tandem Hydrodefluorination/Deamination.

Cuetos, A., Garcia-Ramos, M., Fischereder, E., Diaz-Rodriguez, A., Grogan, G., Gotor, V., Kroutil, W., Lavandera, I.

(2016) Angew Chem Int Ed Engl 55: 3144

PubMed: 26836037 Search on PubMed
DOI: https://doi.org/10.1002/anie.201510554
Primary Citation Related Structures:
5FR9

PubMed Abstract:
Transaminases are valuable enzymes for industrial biocatalysis and enable the preparation of optically pure amines. For these transformations they require either an amine donor (amination of ketones) or an amine acceptor (deamination of racemic amines). Herein transaminases are shown to react with aromatic β-fluoroamines, thus leading to simultaneous enantioselective dehalogenation and deamination to form the corresponding acetophenone derivatives in the absence of an amine acceptor. A series of racemic β-fluoroamines was resolved in a kinetic resolution by tandem hydrodefluorination/deamination, thus giving the corresponding amines with up to greater than 99 % ee. This protocol is the first example of exploiting the catalytic promiscuity of transaminases as a tool for novel transformations.

Organizational Affiliation

York Structural Biology Laboratory, Department of Chemistry, University of York, Heslington, York, YO10 5DD, UK.

Macromolecule Content

Total Structure Weight: 447.99 kDa
Atom Count: 29,531
Modeled Residue Count: 3,843
Deposited Residue Count: 3,996
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
(R)-AMINE TRANSAMINASE	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	333	Arthrobacter sp.	Mutation(s): 28 EC: 2.6.1.18
UniProt
Find proteins for F7J696 (Arthrobacter sp. KNK168) Explore F7J696 Go to UniProtKB: F7J696
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	F7J696
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
9HC Query on 9HC Download:Ideal Coordinates CCD File SDF format, chain X [auth L] SDF format, chain W [auth K] SDF format, chain V [auth J] SDF format, chain U [auth I] SDF format, chain T [auth H] SDF format, chain S [auth G] SDF format, chain R [auth F] SDF format, chain Q [auth E] SDF format, chain P [auth D] SDF format, chain O [auth C] SDF format, chain N [auth B] SDF format, chain M [auth A] MOL2 format, chain X [auth L] MOL2 format, chain W [auth K] MOL2 format, chain V [auth J] MOL2 format, chain U [auth I] MOL2 format, chain T [auth H] MOL2 format, chain S [auth G] MOL2 format, chain R [auth F] MOL2 format, chain Q [auth E] MOL2 format, chain P [auth D] MOL2 format, chain O [auth C] MOL2 format, chain N [auth B] MOL2 format, chain M [auth A] mmCIF format, chain X [auth L] mmCIF format, chain W [auth K] mmCIF format, chain V [auth J] mmCIF format, chain U [auth I] mmCIF format, chain T [auth H] mmCIF format, chain S [auth G] mmCIF format, chain R [auth F] mmCIF format, chain Q [auth E] mmCIF format, chain P [auth D] mmCIF format, chain O [auth C] mmCIF format, chain N [auth B] mmCIF format, chain M [auth A]	M [auth A] N [auth B] O [auth C] P [auth D] Q [auth E] M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	[4-[3-(4-bromophenyl)-3-oxidanylidene-propyl]-6-methyl-5-oxidanyl-pyridin-3-yl]methyl phosphate C₁₆ H₁₅ Br N O₆ P LURUZQWETZCIOP-UHFFFAOYSA-L		Interactions Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth H] Focus chain U [auth I] Focus chain V [auth J] Focus chain W [auth K] Focus chain X [auth L] Interactions & Density Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth H] Focus chain U [auth I] Focus chain V [auth J] Focus chain W [auth K] Focus chain X [auth L]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.81 Å
R-Value Free: 0.239 (Depositor), 0.241 (DCC)
R-Value Work: 0.210 (Depositor), 0.214 (DCC)
R-Value Observed: 0.212 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.148	α = 90
b = 135.506	β = 100.4
c = 197.319	γ = 90

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2016-03-02

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-03-02
Type: Initial release
Version 1.1: 2024-01-10
Changes: Data collection, Database references, Derived calculations, Other, Refinement description
Version 1.2: 2024-11-06
Changes: Structure summary