7STX | pdb_00007stx

Cryo-EM structure of human NatB in complex with CoA-Alpha-Synuclein

• PDB DOI: https://doi.org/10.2210/pdb7STX/pdb
• EM Map EMD-25438: EMDB EMDataResource

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda, Escherichia coli
• Mutation(s): Yes 


• Deposited: 2021-11-15 Released: 2021-12-22 
• Deposition Author(s): Deng, S., Marmorstein, R.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.14 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM structure of human NatB in complex with CoA-Alpha-Synuclein

Deng, S., Marmorstein, R.

Not Published 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 131.47 kDa 
• Atom Count: 8,611 
• Modeled Residue Count: 1,078 
• Deposited Residue Count: 1,140 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
N-alpha-acetyltransferase 20	A	178	Homo sapiens	Mutation(s): 0  Gene Names: NAA20, NAT5 EC: 2.3.1.254
UniProt & NIH Common Fund Data Resources
Find proteins for P61599 (Homo sapiens) Explore P61599  Go to UniProtKB:  P61599
PHAROS:  P61599 GTEx:  ENSG00000173418

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
N-alpha-acetyltransferase 25, NatB auxiliary subunit	B	956	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for Q14CX7 (Homo sapiens) Explore Q14CX7  Go to UniProtKB:  Q14CX7
PHAROS:  Q14CX7 GTEx:  ENSG00000111300

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-synuclein	C	6	Homo sapiens	Mutation(s): 1  Gene Names: SNCA, NACP, PARK1
UniProt & NIH Common Fund Data Resources
Find proteins for P37840 (Homo sapiens) Explore P37840  Go to UniProtKB:  P37840
PHAROS:  P37840 GTEx:  ENSG00000145335

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
COA (Subject of Investigation/LOI)	D [auth A]	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.14 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.17.1-3660
RECONSTRUCTION	RELION	3.0

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-12-22 
Deposition Author(s): Deng, S., Marmorstein, R.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R35 GM118090

Revision History  

• Version 1.0: 2021-12-22
  Type: Initial release
  
• Version 1.1: 2023-07-05
  Changes: Database references
• Version 2.0: 2024-12-25
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary