8ID1

Crystal structure of N-Methyl-cis-4-hydroxy-L-proline dehydratase in Intestinibacter bartlettii

• PDB DOI: https://doi.org/10.2210/pdb8ID1/pdb

• Classification: LYASE
• Organism(s): Intestinibacter bartlettii
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-02-11 Released: 2024-03-27 
• Deposition Author(s): Jiang, L., Zhang, Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.12 Å
• R-Value Free: 0.309 
• R-Value Work: 0.211 
• R-Value Observed: 0.221 

Literature

CRYSTAL STRUCTURE OF cis-N-Methylhydroxy-L-proline dehydratase in Intestinibacter bartlettii

Jiang, L., Zhang, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 89.61 kDa 
• Atom Count: 6,185 
• Modelled Residue Count: 780 
• Deposited Residue Count: 792 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Formate C-acetyltransferase	A	792	Intestinibacter bartlettii	Mutation(s): 0  Gene Names: C7955_105265

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
6IW (Subject of Investigation/LOI)	B [auth A]	(2S,4S)-1-methyl-4-oxidanyl-pyrrolidine-2-carboxylic acid C6 H11 N O3 FMIPNAUMSPFTHK-WHFBIAKZSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.12 Å
• R-Value Free: 0.309 
• R-Value Work: 0.211 
• R-Value Observed: 0.221 
• Space Group: P 4₂ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 142.747	α = 90
b = 142.747	β = 90
c = 101.032	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
XDS	data reduction
PHENIX	refinement
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-03-27 
Deposition Author(s): Jiang, L., Zhang, Y.

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

Revision History  

• Version 1.0: 2024-03-27
  Type: Initial release