9TAV | pdb_00009tav

De novo photoenzyme photoABLE2 in complex with substrate

PDB DOI: https://doi.org/10.2210/pdb9TAV/pdb

Classification: DE NOVO PROTEIN
Organism(s): synthetic construct
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-11-18 Released: 2026-03-25
Deposition Author(s): Boesen, B., Heider, A., O'Shea, J.M., Groll, M., Bach, T., Zeymer, C.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free:
0.262 (Depositor), 0.264 (DCC)
R-Value Work:
0.213 (Depositor), 0.228 (DCC)
R-Value Observed:
0.215 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

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

Literature

Enantiodivergent Evolution of a De Novo Protein for Enzymatic [2 + 2] Photocycloaddition Activity

Boesen, B., Heider, A., O’Shea, J.M., Groll, M., Bach, T., Zeymer, C.

(2026) Acs Catal

DOI: https://doi.org/10.1021/acscatal.5c08946

Macromolecule Content

Total Structure Weight: 28.03 kDa
Atom Count: 2,037
Modeled Residue Count: 245
Deposited Residue Count: 252
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
De novo photoenzyme photoABLE2	A, B	126	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1JUW (Subject of Investigation/LOI) Query on A1JUW Download:Ideal Coordinates CCD File SDF format, chain D [auth A] MOL2 format, chain D [auth A] mmCIF format, chain D [auth A]	D [auth A]	1-(9-oxidanylidenethioxanthen-2-yl)pyrrolidine-2,5-dione C₁₇ H₁₁ N O₃ S NNARTBFMPNOEGC-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Interactions & Density Focus chain D [auth A]
A1JUV (Subject of Investigation/LOI) Query on A1JUV Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	3-but-3-enoxy-1~{H}-quinolin-2-one C₁₃ H₁₃ N O₂ UXVYMABGLCMKCH-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.262 (Depositor), 0.264 (DCC)
R-Value Work: 0.213 (Depositor), 0.228 (DCC)
R-Value Observed: 0.215 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 25.8	α = 90
b = 47.4	β = 90
c = 164.6	γ = 90

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-03-25

Deposition Author(s):

Funding Organization	Location	Grant Number
German Research Foundation (DFG)	Germany	444632635
German Research Foundation (DFG)	Germany	439143547

Revision History (Full details and data files)

Version 1.0: 2026-03-25
Type: Initial release

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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.