6SBI

X-ray structure of murine Fumarylacetoacetate hydrolase domain containing protein 1 (FAHD1) in complex with inhibitor oxalate

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.187 
  • R-Value Observed: 0.189 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history. 


Literature

Structural and functional comparison of fumarylacetoacetate domain containing protein 1 in human and mouse.

Weiss, A.K.H., Naschberger, A., Cappuccio, E., Metzger, C., Mottes, L., Holzknecht, M., von Velsen, J., Bowler, M.W., Rupp, B., Jansen-Durr, P.

(2020) Biosci Rep 40

  • DOI: https://doi.org/10.1042/BSR20194431
  • Primary Citation of Related Structures:  
    6SBI, 6SBJ

  • PubMed Abstract: 

    • FAH domain containing protein 1 (FAHD1) is a mammalian mitochondrial protein, displaying bifunctionality as acylpyruvate hydrolase (ApH) and oxaloacetate decarboxylase (ODx) activity. We report the crystal structure of mouse FAHD1 and structural mapping of the active site of mouse FAHD1 ...

    FAH domain containing protein 1 (FAHD1) is a mammalian mitochondrial protein, displaying bifunctionality as acylpyruvate hydrolase (ApH) and oxaloacetate decarboxylase (ODx) activity. We report the crystal structure of mouse FAHD1 and structural mapping of the active site of mouse FAHD1. Despite high structural similarity with human FAHD1, a rabbit monoclonal antibody (RabMab) could be produced that is able to recognize mouse FAHD1, but not the human form, whereas a polyclonal antibody recognized both proteins. Epitope mapping in combination with our deposited crystal structures revealed that the epitope overlaps with a reported SIRT3 deacetylation site in mouse FAHD1.

    Organizational Affiliation: 

    University of Innsbruck, Center for Molecular Biosciences Innsbruck (CMBI), Innrain 80-82, Innsbruck A-6020, Austria.



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Acylpyruvase FAHD1, mitochondrial
A, B, C, D
265Mus musculusMutation(s): 0 
Gene Names: Fahd1, MNCb-4134
EC: 3.7.1.5 (PDB Primary Data), 4.1.1.112 (PDB Primary Data)
UniProt
Find proteins for Q8R0F8 (Mus musculus)
Explore Q8R0F8 
Go to UniProtKB:  Q8R0F8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8R0F8
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OXL (Subject of Investigation/LOI)
Query on OXL
Download Ideal Coordinates CCD File 
J [auth A],
N [auth B],
T [auth C],
W [auth D]		OXALATE ION
C2 O4
MUBZPKHOEPUJKR-UHFFFAOYSA-L		 Ligand Interaction
K
Query on K
Download Ideal Coordinates CCD File 
F [auth A],
P [auth C]		POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N		 Ligand Interaction
CL
Query on CL
Download Ideal Coordinates CCD File 
G [auth A]
H [auth A]
I [auth A]
L [auth B]
M [auth B]
G [auth A],
H [auth A],
I [auth A],
L [auth B],
M [auth B],
Q [auth C],
R [auth C],
S [auth C],
V [auth D]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M		 Ligand Interaction
MG (Subject of Investigation/LOI)
Query on MG
Download Ideal Coordinates CCD File 
E [auth A],
K [auth B],
O [auth C],
U [auth D]		MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.603α = 90
b = 103.348β = 90.21
c = 86.597γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
STARANISOdata scaling
MOLREPphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
European CommissionAustria512020
Austrian Science FundAustriaP28395-B26

Revision History  (Full details and data files)

  • Version 1.0: 2020-03-25
    Type: Initial release