8UTY

KIF1A[1-393] P364L mutant AMP-PNP bound two-heads-bound state in complex with a microtubule

• PDB DOI: https://doi.org/10.2210/pdb8UTY/pdb
• EM Map EMD-42553: EMDB EMDataResource

• Classification: MOTOR PROTEIN
• Organism(s): Sus scrofa, Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2023-10-31 Released: 2024-06-12 
• Deposition Author(s): Benoit, M.P.M.H., Rao, L., Asenjo, A.B., Gennerich, A., Sosa, H.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Simons Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

Cryo-EM of human KIF1A reveals its mechanism of motility and the effect of its pathogenic variant P305L

Benoit, M.P.M.H., Rao, L., Asenjo, A.B., Gennerich, A., Sosa, H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 7-mer - A3B2C2 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 7-mer - A5B2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 354.5 kDa 
• Atom Count: 23,765 
• Modelled Residue Count: 2,979 
• Deposited Residue Count: 3,119 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin alpha-1B chain	A, C [auth E], F [auth S]	451	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for Q2XVP4 (Sus scrofa) Explore Q2XVP4  Go to UniProtKB:  Q2XVP4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin beta-2B chain	B, D [auth I]	445	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for A0A287AGU7 (Sus scrofa) Explore A0A287AGU7  Go to UniProtKB:  A0A287AGU7

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Kinesin-like protein KIF1A	E [auth K], G [auth N]	438	Homo sapiens	Mutation(s): 1  Gene Names: KIF1A
UniProt & NIH Common Fund Data Resources
Find proteins for Q12756 (Homo sapiens) Explore Q12756  Go to UniProtKB:  Q12756
PHAROS:  Q12756 GTEx:  ENSG00000130294

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TA1	K [auth B], O [auth I]	TAXOL C47 H51 N O14 RCINICONZNJXQF-MZXODVADSA-N
GTP	H [auth A], L [auth E], R [auth S]	GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N
ANP	Q [auth K], T [auth N]	PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER C10 H17 N6 O12 P3 PVKSNHVPLWYQGJ-KQYNXXCUSA-N
GDP	J [auth B], N [auth I]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG	I [auth A], M [auth E], P [auth K], S	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.30 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-12 
Deposition Author(s): Benoit, M.P.M.H., Rao, L., Asenjo, A.B., Gennerich, A., Sosa, H.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM113164
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM098469
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01NS114636
Simons Foundation	United States	SF349247
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM103310

Revision History  

• Version 1.0: 2024-06-12
  Type: Initial release