5I1V

Crystal structure of CrmK, a flavoenzyme involved in the shunt product recycling mechanism in caerulomycin biosynthesis

• PDB DOI: https://doi.org/10.2210/pdb5I1V/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Actinoalloteichus sp. WH1-2216-6
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2016-02-07 Released: 2017-02-15 
• Deposition Author(s): Picard, M.-E., Barma, J., Shi, R.
• Funding Organization(s): Natural Sciences and Engineering Research Council (NSERC, Canada)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.84 Å
• R-Value Free: 0.194 
• R-Value Work: 0.161 
• R-Value Observed: 0.163 

Starting Model: experimental

Literature

Biochemical and structural insights into flavoenzyme CrmK reveals a shunt product recycling mechanism in caerulomycin biosynthesis

Zhu, Y., Picard, M.-E., Mei, X., Zhang, Q., Barma, J., Murphy Despres, X., Couture, M., Zhu, W., Zhang, C., Shi, R.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 224.29 kDa 
• Atom Count: 17,227 
• Modelled Residue Count: 1,991 
• Deposited Residue Count: 2,000 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CrmK	A, B, C, D	500	Actinoalloteichus sp. WH1-2216-6	Mutation(s): 0
UniProt
Find proteins for H8Y6P5 (Actinoalloteichus sp. WH1-2216-6) Explore H8Y6P5  Go to UniProtKB:  H8Y6P5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	E [auth A], F [auth B], G [auth C], H [auth D]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.84 Å
• R-Value Free: 0.194 
• R-Value Work: 0.161 
• R-Value Observed: 0.163 
• Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.63	α = 95.18
b = 95.73	β = 96.98
c = 98.44	γ = 104.39

Software Package:

Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-02-15 
Deposition Author(s): Picard, M.-E., Barma, J., Shi, R.

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Funding Organization	Location	Grant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)	Canada	--

Revision History  

• Version 1.0: 2017-02-15
  Type: Initial release
  
• Version 1.1: 2017-09-13
  Changes: Author supporting evidence
• Version 1.2: 2020-01-08
  Changes: Author supporting evidence, Derived calculations
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Derived calculations, Refinement description