6L2U | pdb_00006l2u

Soluble methane monooxygenase reductase FAD-binding domain from Methylosinus sporium.

• PDB DOI: https://doi.org/10.2210/pdb6L2U/pdb

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


• Deposited: 2019-10-07 Released: 2021-03-03 
• Deposition Author(s): Park, J.H., Ha, S.C., Rao, Z., Yoo, H., Yoon, C., Kim, S.Y., Kim, D.S., Lee, S.J.
• Funding Organization(s): National Research Foundation (Korea)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.197 (Depositor), 0.197 (DCC) 
• R-Value Work: 
  0.160 (Depositor), 0.159 (DCC) 
• R-Value Observed: 
  0.162 (Depositor) 

Literature

Elucidation of the electron transfer environment in the MMOR FAD-binding domain from Methylosinus sporium 5.

Lee, C., Ha, S.C., Rao, Z., Hwang, Y., Kim, D.S., Kim, S.Y., Yoo, H., Yoon, C., Na, J.G., Park, J.H., Lee, S.J.

(2021) Dalton Trans 50: 16493-16498

• PubMed: 34734616 
• DOI: https://doi.org/10.1039/d1dt03273a
• Primary Citation Related Structures: 
  6L2U


• PubMed Abstract: 
  

  By facilitating electron transfer to the hydroxylase diiron center, MMOR-a reductase-serves as an essential component of the catalytic cycle of soluble methane monooxygenase. Here, the X-ray structure analysis of the FAD-binding domain of MMOR identified crucial residues and its influence on the catalytic cycle.

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Organizational Affiliation: 
• Department of Chemistry and Institute of Molecular Biology and Genetics, Jeonbuk National University, Jeonju 54796, Republic of Korea. [e-mail].
Pohang Accelerator Laboratory, Pohang University of Science and Technology, Pohang 37673, Republic of Korea.
Division of Biotechnology, College of Environmental & Bioresources Sciences, Jeonbuk National University, Iksan 54596, Republic of Korea. [e-mail].
Department of Chemical and Biomolecular Engineering, Sogang University, Seoul 04107, Republic of Korea. [e-mail].
Advanced Institute of Environment and Bioscience, College of Environmental & Bioresources Sciences, Jeonbuk National University, Iksan 54596, Republic of Korea.

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)

Macromolecule Content 

• Total Structure Weight: 24.04 kDa 
• Atom Count: 1,870 
• Modeled Residue Count: 206 
• Deposited Residue Count: 206 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methane monooxygenase	A, B	103	Methylosinus sporium	Mutation(s): 0  Gene Names: mmoC, C5689_05345
UniProt
Find proteins for Q27RN2 (Methylosinus sporium) Explore Q27RN2  Go to UniProtKB:  Q27RN2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD (Subject of Investigation/LOI)	C [auth A], D [auth B]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.197 (Depositor), 0.197 (DCC) 
• R-Value Work:  0.160 (Depositor), 0.159 (DCC) 
• R-Value Observed: 0.162 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 34.59	α = 90
b = 59.872	β = 90
c = 94.499	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2021-03-03 
Deposition Author(s): Park, J.H., Ha, S.C., Rao, Z., Yoo, H., Yoon, C., Kim, S.Y., Kim, D.S., Lee, S.J.

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Funding Organization	Location	Grant Number
National Research Foundation (Korea)	Korea, Republic Of	NRF-2015M3D3A1A01064876

Revision History  

• Version 1.0: 2021-03-03
  Type: Initial release
  
• Version 1.1: 2021-12-08
  Changes: Database references
• Version 1.2: 2024-05-29
  Changes: Data collection, Refinement description