9X2D | pdb_00009x2d

Ilamycin carboxylase IlaL

• PDB DOI: https://doi.org/10.2210/pdb9X2D/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Streptomyces atratus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-10-04 Released: 2026-10-07 
• Deposition Author(s): Peng, M., Wu, Q.L.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.22 Å
• R-Value Free: 
  0.320 (Depositor), 0.313 (DCC) 
• R-Value Work: 
  0.253 (Depositor), 0.251 (DCC) 
• R-Value Observed: 
  0.257 (Depositor) 

Literature

The crystal structure of ilamycin carboxylase IlaL

Peng, M., Wu, Q.L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 182.17 kDa 
• Atom Count: 12,790 
• Modeled Residue Count: 1,596 
• Deposited Residue Count: 1,636 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
IlaL	A, B, C, D	402	Streptomyces atratus	Mutation(s): 0
UniProt
Find proteins for A0A286MYR8 (Streptomyces atratus) Explore A0A286MYR8  Go to UniProtKB:  A0A286MYR8

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Ilamycin B2	E, F, G, H	7	Streptomyces atratus	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HEM	I [auth A], J [auth B], K [auth C], L [auth D]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L

Modified Residues  4 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
A1EZB	E, F, G, H	L-PEPTIDE LINKING	C16 H20 N2 O3		TRP
F7V	E, F, G, H	L-PEPTIDE LINKING	C6 H11 N O2		--
MLE	E, F, G, H	L-PEPTIDE LINKING	C7 H15 N O2		LEU
NIY	E, F, G, H	L-PEPTIDE LINKING	C9 H10 N2 O5		TYR

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.22 Å
• R-Value Free:  0.320 (Depositor), 0.313 (DCC) 
• R-Value Work:  0.253 (Depositor), 0.251 (DCC) 
• R-Value Observed: 0.257 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.05	α = 85.01
b = 74.653	β = 86.05
c = 95.908	γ = 73.17

Software Package:

Software Name	Purpose
PHENIX	refinement
autoPX	data processing
autoPX	data reduction
PHASER	phasing
PHASER	phasing
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-10-07 
Deposition Author(s): Peng, M., Wu, Q.L.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2026-10-07
  Type: Initial release