9IW1 | pdb_00009iw1

wild type NMN/NaMN adenylyltransferase from Chaetomium thermophilum


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.11 Å
  • R-Value Free: 
    0.232 (Depositor), 0.231 (DCC) 
  • R-Value Work: 
    0.192 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 
    0.194 (Depositor) 

Starting Model: experimental
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Literature

Biochemical and structural characterization of a novel nicotinamide mononucleotide adenylyltransferase from thermophilic fungi Chaetomium thermophilum.

Qian, X.L.Li, J.Y.Li, C.X.Pan, J.Mu, B.Xu, J.H.

(2025) Biochem Biophys Res Commun 776: 152192-152192

  • DOI: https://doi.org/10.1016/j.bbrc.2025.152192
  • Primary Citation of Related Structures:  
    9IW1

  • PubMed Abstract: 

    Nicotinamide mononucleotide adenylyltransferases (NMNAT EC: 2.7.7.1) play pivotal roles in synthesis of nicotinamide adenine dinucleotide (NAD + ) through catalyzing the reaction of nicotinamide mononucleotide (NMN) with adenosine triphosphate (ATP). To date, multiple crystal structures of NMNAT originated from bacteria, archaea, and eukaryote have been resolved. However, none structure of NMNAT from thermophilic fungi was elucidated. Here we report the structure of nicotinamide mononucleotide adenylyltransferase (CtNMNAT) from thermophilic fungi Chaetomium thermophilum at a resolution of 2.10 Å. The enzyme crystals were in space group of P2 1 2 1 2 1 with two monomers per asymmetric unit. A nicotinamide mononucleotide (NMN) molecule was identified in the active pocket. Enzyme activity assays confirmed that CtNMNAT has a relatively high activity and good thermostability. The pH and temperature optima of CtNMNAT were pH 6.0 and 60 °C. CtNMNAT was stable at 50 °C with a half-life of 25.9 h. The specificity constant k cat /K M of CtNMNAT toward NMN was 180 s -1  mM -1 28.5 mM NAD + was produced when using CtNMNAT as catalyst with a space-time yield of 72.0 g L -1  d -1 . This work provides a starting point for further investigation into the role of CtNMNAT in the NAD  +  metabolism of Chaetomium thermophilum and useful guidance for industrial application of CtNMNAT in the biocatalytic synthesis of NAD + .


  • Organizational Affiliation

    State Key Laboratory of Bioreactor Engineering, East China University of Science and Technology, Shanghai, 200237, PR China; Suzhou Bioforany EnzyTech Co. Ltd., No. 8 Yanjiuyuan Road, Economic Development Zone, Changshu, Jiangsu, 215512, PR China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Nicotinamide-nucleotide adenylyltransferase
A, B
333Thermochaetoides thermophila DSM 1495Mutation(s): 0 
Gene Names: CTHT_0044330
EC: 2.7.7.1 (PDB Primary Data), 2.7.7.18 (PDB Primary Data)
UniProt
Find proteins for G0S929 (Chaetomium thermophilum (strain DSM 1495 / CBS 144.50 / IMI 039719))
Explore G0S929 
Go to UniProtKB:  G0S929
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG0S929
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NMN (Subject of Investigation/LOI)
Query on NMN

Download Ideal Coordinates CCD File 
C [auth A],
I [auth B]
BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE
C11 H16 N2 O8 P
DAYLJWODMCOQEW-TURQNECASA-O
PEG
Query on PEG

Download Ideal Coordinates CCD File 
E [auth A],
K [auth B]
DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
GOL
Query on GOL

Download Ideal Coordinates CCD File 
D [auth A],
H [auth A],
J [auth B]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO
Query on EDO

Download Ideal Coordinates CCD File 
F [auth A],
G [auth A],
L [auth B]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.11 Å
  • R-Value Free:  0.232 (Depositor), 0.231 (DCC) 
  • R-Value Work:  0.192 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 0.194 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 42.988α = 90
b = 60.536β = 90
c = 202.142γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, China)China--

Revision History  (Full details and data files)

  • Version 1.0: 2025-06-25
    Type: Initial release