9IQN | pdb_00009iqn

CatM-W86A-L6R, a SnoaL-like protein in complex with substrate mimic L6R

PDB DOI: https://doi.org/10.2210/pdb9IQN/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Streptantibioticus cattleyicolor NRRL 8057 = DSM 46488
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): Yes

Deposited: 2024-07-12 Released: 2025-07-16
Deposition Author(s): Zhang, B., Ge, H.M.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.260 (Depositor), 0.259 (DCC)
R-Value Work:
0.226 (Depositor), 0.226 (DCC)
R-Value Observed:
0.229 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Tandem Michael addition and Knoevenagel condensation catalyzed by NTF2-Like Enzymes as iminium catalysis

Liu, C.L., Zhang, B., Ge, H.M.

To be published.

Macromolecule Content

Total Structure Weight: 14.83 kDa
Atom Count: 980
Modeled Residue Count: 121
Deposited Residue Count: 132
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
SnoaL-like domain-containing protein	A	132	Streptantibioticus cattleyicolor NRRL 8057 = DSM 46488	Mutation(s): 1 Gene Names: SCATT_01420
UniProt
Find proteins for G8X1I4 (Streptantibioticus cattleyicolor (strain ATCC 35852 / DSM 46488 / JCM 4925 / NBRC 14057 / NRRL 8057)) Explore G8X1I4 Go to UniProtKB: G8X1I4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	G8X1I4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1D91 (Subject of Investigation/LOI) Query on A1D91 Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	(5~{R},6~{R})-6-[(~{E})-5-[(2~{S},3~{S},5~{R})-5-(2-hydroxyethyl)-3,5-dimethyl-oxolan-2-yl]-3-methyl-2-oxidanylidene-pent-3-enyl]-5-propyl-oxane-2,4-dione C₂₂ H₃₄ O₆ MVJVJKSGEMISOL-HXEGTYTISA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.260 (Depositor), 0.259 (DCC)
R-Value Work: 0.226 (Depositor), 0.226 (DCC)
R-Value Observed: 0.229 (Depositor)

Space Group: I 4 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.485	α = 90
b = 68.485	β = 90
c = 126.98	γ = 90

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2025-07-16

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	22277051,81925033, 22193071

Revision History (Full details and data files)

Version 1.0: 2025-07-16
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.