6LNH | pdb_00006lnh

Crystal structure of IDO from Bacillus thuringiensis

• PDB DOI: https://doi.org/10.2210/pdb6LNH/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Bacillus thuringiensis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2019-12-30 Released: 2021-01-13 
• Deposition Author(s): Feng, Y., Huang, J.W., Liu, W.D., Chen, C.C., Guo, R.T.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free: 
  0.264 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.228 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.230 (Depositor) 

Literature

Crystal structure of IDO from Bacillus thuringiensis

Feng, Y., Huang, J.W., Liu, W.D., Chen, C.C., Guo, R.T.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

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

Macromolecule Content 

• Total Structure Weight: 116.49 kDa 
• Atom Count: 7,392 
• Modeled Residue Count: 887 
• Deposited Residue Count: 1,004 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
L-isoleucine-4-hydroxylase	A, B, C, D	251	Bacillus thuringiensis	Mutation(s): 0  Gene Names: ido EC: 1.14.11.45
UniProt
Find proteins for E2GIN1 (Bacillus thuringiensis) Explore E2GIN1  Go to UniProtKB:  E2GIN1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
HG (Subject of Investigation/LOI)	E [auth A], F [auth A], G [auth A], I [auth B], J [auth B], K [auth B], N [auth D]	MERCURY (II) ION Hg BQPIGGFYSBELGY-UHFFFAOYSA-N
FE (Subject of Investigation/LOI)	H [auth A], L [auth B], M [auth C], O [auth D]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free:  0.264 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.228 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.230 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.425	α = 90
b = 120.965	β = 108.11
c = 81.715	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data scaling
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-01-13 
Deposition Author(s): Feng, Y., Huang, J.W., Liu, W.D., Chen, C.C., Guo, R.T.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2021-01-13
  Type: Initial release
  
• Version 2.0: 2023-10-25
  Type: Coordinate replacement
  Reason: Ligand geometry
  Changes: Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Refinement description, Structure summary