Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Helical - H  (3D View)
Global Stoichiometry: Hetero 105-mer - A35B35C35 Pseudo Symmetry: Helical - H  (3D View)
Pseudo Stoichiometry: Hetero 105-mer - A70B35 

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

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 149.02 kDa 
• Atom Count: 9829 
• Modelled Residue Count: 1238 
• Deposited Residue Count: 1315 
• Unique protein chains: 3

6B0I

Apo KLP10A in complex with a microtubule

• DOI: 10.2210/pdb6B0I/pdb
• EMDataResource: EMD-7027

• Classification: MOTOR PROTEIN/STRUCTURAL PROTEIN
• Organism(s): Sus scrofa, Drosophila melanogaster
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2017-09-14 Released: 2018-05-02 
• Deposition Author(s): Benoit, M.P.M.H., Asenjo, A.B., Sosa, H.
• 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: 3.78 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

Cryo-EM reveals the structural basis of microtubule depolymerization by kinesin-13s.

Benoit, M.P.M.H., Asenjo, A.B., Sosa, H.

(2018) Nat Commun 9: 1662-1662

• PubMed: 29695795 
• DOI: 10.1038/s41467-018-04044-8
• Primary Citation of Related Structures:  
  6B0C, 6B0L, 6B0I


• PubMed Abstract: 
  

Kinesin-13s constitute a distinct group within the kinesin superfamily of motor proteins that promote microtubule depolymerization and lack motile activity. The molecular mechanism by which kinesin-13s depolymerize microtubules and are adapted to perform a seemingly very different activity from other kinesins is still unclear. To address this issue, here we report the near atomic resolution cryo-electron microscopy (cryo-EM) structures of Drosophila melanogaster kinesin-13 KLP10A protein constructs bound to curved or straight tubulin in different nucleotide states. These structures show how nucleotide induced conformational changes near the catalytic site are coupled with movement of the kinesin-13-specific loop-2 to induce tubulin curvature leading to microtubule depolymerization. The data highlight a modular structure that allows similar kinesin core motor-domains to be used for different functions, such as motility or microtubule depolymerization.

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Organizational Affiliation: 

Department of Physiology and Biophysics, Albert Einstein College of Medicine, Bronx, NY, 10461, USA. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin alpha-1B chain	A	451	Sus scrofa	Mutation(s): 0  Gene Names: TUBA1B
UniProt
Find proteins for Q2XVP4 (Sus scrofa) Explore Q2XVP4  Go to UniProtKB:  Q2XVP4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Kinesin-like protein Klp10A	B [auth K]	419	Drosophila melanogaster	Mutation(s): 0  Gene Names: Klp10A, CG1453
UniProt
Find proteins for Q960Z0 (Drosophila melanogaster) Explore Q960Z0  Go to UniProtKB:  Q960Z0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Tubulin beta chain	C [auth B]	445	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for P02554 (Sus scrofa) Explore P02554  Go to UniProtKB:  P02554

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TA1	G [auth B]	TAXOL C47 H51 N O14 RCINICONZNJXQF-MZXODVADSA-N
GTP	D [auth A]	GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N
GDP	F [auth B]	GUANOSINE-5'-DIPHOSPHATE C10 H15 N5 O11 P2 QGWNDRXFNXRZMB-UUOKFMHZSA-N
MG	E [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.78 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2017-09-14 
• Released Date: 2018-05-02 
Deposition Author(s): Benoit, M.P.M.H., Asenjo, A.B., 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

Revision History  

• Version 1.0: 2018-05-02
  Type: Initial release
  
• Version 1.1: 2018-05-09
  Changes: Data collection, Database references
• Version 1.2: 2020-01-01
  Changes: Author supporting evidence