9N43 | pdb_00009n43

Crystal structure of none-heme iron enzyme (TqaM) from Trichoderma atroviride bound with iron

PDB DOI: https://doi.org/10.2210/pdb9N43/pdb

Classification: METAL BINDING PROTEIN
Organism(s): Trichoderma atroviride
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2025-02-01 Released: 2026-01-28
Deposition Author(s): Liu, S., Zheng, Y.-C., Chang, W.-C.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.292 (Depositor), 0.292 (DCC)
R-Value Work:
0.260 (Depositor), 0.261 (DCC)
R-Value Observed:
0.262 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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

Literature

Directed Evolution and Unusual Protonation Mechanism of Pyridoxal Radical C–C Coupling Enzymes for the Enantiodivergent Photobiocatalytic Synthesis of Noncanonical Amino Acids

Cheng, L., Bo, Z., Krohn-Hansen, B., Yang, Y.

(2025) J Am Chem Soc 147: 4602-4612

DOI: https://doi.org/10.1021/jacs.4c16716

Macromolecule Content

Total Structure Weight: 125.02 kDa
Atom Count: 8,977
Modeled Residue Count: 1,126
Deposited Residue Count: 1,132
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Class II aldolase/adducin N-terminal domain-containing protein	A, B, C, D	283	Trichoderma atroviride	Mutation(s): 0 Gene Names: TRIATDRAFT_52267
UniProt
Find proteins for G9NNG6 (Hypocrea atroviridis (strain ATCC 20476 / IMI 206040)) Explore G9NNG6 Go to UniProtKB: G9NNG6
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G9NNG6
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FE (Subject of Investigation/LOI) Query on FE Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain F [auth B] SDF format, chain G [auth C] SDF format, chain H [auth D] MOL2 format, chain E [auth A] MOL2 format, chain F [auth B] MOL2 format, chain G [auth C] MOL2 format, chain H [auth D] mmCIF format, chain E [auth A] mmCIF format, chain F [auth B] mmCIF format, chain G [auth C] mmCIF format, chain H [auth D]	E [auth A], F [auth B], G [auth C], H [auth D]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.292 (Depositor), 0.292 (DCC)
R-Value Work: 0.260 (Depositor), 0.261 (DCC)
R-Value Observed: 0.262 (Depositor)

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 114.513	α = 90
b = 124.972	β = 90
c = 187.295	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
CrysalisPro	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2026-01-28

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2026-01-28
Type: Initial release

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.