5HLE | pdb_00005hle

Structural basis of backwards motion in kinesin-14: minus-end directed nKn664 in the ADP state

• PDB DOI: https://doi.org/10.2210/pdb5HLE/pdb

• Classification: HYDROLASE
• Organism(s): Drosophila melanogaster, Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-01-14 Released: 2017-01-25 
• Deposition Author(s): Nitta, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.287 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.211 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.218 (Depositor) 

Starting Model: experimental

Literature

Backwards motion in kinesin-14 requires neck-mimic to control a neck-helix swing.

Yamagishi, M., Shigematsu, H., Yokoyama, T., Kikkawa, M., Sugawa, M., Aoki, M., Shirouzu, M., Yajima, J., Nitta, R.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Macromolecule Content 

• Total Structure Weight: 42.07 kDa 
• Atom Count: 2,400 
• Modeled Residue Count: 303 
• Deposited Residue Count: 371 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein claret segregational,Minus-end kinesin-1/kinesin-14,Protein claret segregational	A	371	Drosophila melanogaster, Rattus norvegicus	Mutation(s): 0  EC: 3.6.4
UniProt
Find proteins for P20480 (Drosophila melanogaster) Explore P20480  Go to UniProtKB:  P20480
Find proteins for P56536 (Rattus norvegicus) Explore P56536  Go to UniProtKB:  P56536
UniProt Groups	P20480P56536

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	B [auth A]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.287 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.211 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.218 (Depositor) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.858	α = 90
b = 112.858	β = 90
c = 72.11	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data scaling
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-01-25 
Deposition Author(s): Nitta, R.

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Funding Organization	Location	Grant Number
	Japan	--

Revision History  

• Version 1.0: 2017-01-25
  Type: Initial release
  
• Version 1.1: 2020-02-19
  Changes: Data collection
• Version 1.2: 2023-11-08
  Changes: Data collection, Database references, Refinement description