1GZU

Crystal Structure of Human Nicotinamide Mononucleotide Adenylyltransferase in Complex with NMN

• PDB DOI: https://doi.org/10.2210/pdb1GZU/pdb
• Entry: 1GZU supersedes: 1GRY

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2002-06-06 Released: 2002-07-05 
• Deposition Author(s): Werner, E., Ziegler, M., Lerner, F., Schweiger, M., Heinemann, U.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.286 
• R-Value Work: 0.246 
• R-Value Observed: 0.248 

Literature

Crystal structure of human nicotinamide mononucleotide adenylyltransferase in complex with NMN.

Werner, E., Ziegler, M., Lerner, F., Schweiger, M., Heinemann, U.

(2002) FEBS Lett 516: 239-244

• PubMed: 11959140 
• DOI: https://doi.org/10.1016/s0014-5793(02)02556-5
• Primary Citation of Related Structures:  
  1GZU


• PubMed Abstract: 
  

  The final step in the biosynthesis of nicotinamide-adenine dinucleotide, a major coenzyme in cellular redox reactions and involved in intracellular signaling, is catalyzed by the enzyme nicotinamide mononucleotide adenylyltransferase (NMNAT). The X-ray structure of human NMNAT in complex with nicotinamide mononucleotide was solved by the single-wavelength anomalous dispersion method at a resolution of 2.9 A. Human NMNAT is a symmetric hexamer whose subunit is formed by a large six-stranded parallel beta-sheet with helices on both sides. Human NMNAT displays a different oligomerization compared to the archaeal enzyme. The protein-nicotinamide mononucleotide interaction pattern provides insight into ligand binding in the human enzyme.

---

Organizational Affiliation: 

Crystallography Group, Max Delbrück Center for Molecular Medicine, Robert-Rössle-Str. 10, D-13092, Berlin, Germany. [e-mail]

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

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

Macromolecule Content

• Total Structure Weight: 101.34 kDa 
• Atom Count: 5,544 
• Modelled Residue Count: 684 
• Deposited Residue Count: 870 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
NICOTINAMIDE MONONUCLEOTIDE ADENYLYL TRANSFERASE	A, B, C	290	Homo sapiens	Mutation(s): 0  EC: 2.7.7.1 (PDB Primary Data), 2.7.7.18 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HAN9 (Homo sapiens) Explore Q9HAN9  Go to UniProtKB:  Q9HAN9
PHAROS:  Q9HAN9 GTEx:  ENSG00000173614

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NMN	D [auth A], E [auth B], F [auth C]	BETA-NICOTINAMIDE RIBOSE MONOPHOSPHATE C11 H16 N2 O8 P DAYLJWODMCOQEW-TURQNECASA-O

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B, C	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.286 
• R-Value Work: 0.246 
• R-Value Observed: 0.248 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 140.8	α = 90
b = 235.7	β = 90
c = 89	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2002-07-05 
Deposition Author(s): Werner, E., Ziegler, M., Lerner, F., Schweiger, M., Heinemann, U.
• This entry supersedes: 1GRY

Revision History  

• Version 1.0: 2002-07-05
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2018-06-13
  Changes: Advisory, Data collection, Database references, Refinement description, Structure summary
• Version 1.4: 2024-11-13
  Changes: Advisory, Data collection, Database references, Derived calculations, Refinement description, Structure summary