5X3E

kinesin 6


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Crystal structure of Zen4 in the apo state reveals a missing conformation of kinesin

Guan, R.Zhang, L.Su, Q.P.Mickolajczyk, K.J.Chen, G.Y.Hancock, W.O.Sun, Y.Zhao, Y.Chen, Z.

(2017) Nat Commun 8: 14951-14951

  • DOI: https://doi.org/10.1038/ncomms14951
  • Primary Citation of Related Structures:  
    5X3E

  • PubMed Abstract: 

    Kinesins hydrolyse ATP to transport intracellular cargoes along microtubules. Kinesin neck linker (NL) functions as the central mechano-chemical coupling element by changing its conformation through the ATPase cycle. Here we report the crystal structure of kinesin-6 Zen4 in a nucleotide-free, apo state, with the NL initial segment (NIS) adopting a backward-docked conformation and the preceding α6 helix partially melted. Single-molecule fluorescence resonance energy transfer (smFRET) analyses indicate the NIS of kinesin-1 undergoes similar conformational changes under tension in the two-head bound (2HB) state, whereas it is largely disordered without tension. The backward-docked structure of NIS is essential for motility of the motor. Our findings reveal a key missing conformation of kinesins, which provides the structural basis of the stable 2HB state and offers a tension-based rationale for an optimal NL length to ensure processivity of the motor.


  • Organizational Affiliation

    National Laboratory of Biomacromolecules, Institute of Biophysics, Beijing 100101, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Kinesin-like protein
A, B
449Caenorhabditis elegansMutation(s): 0 
Gene Names: zen-4CELE_M03D4.1M03D4.1
UniProt
Find proteins for G5EG83 (Caenorhabditis elegans)
Explore G5EG83 
Go to UniProtKB:  G5EG83
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG5EG83
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
IOD
Query on IOD

Download Ideal Coordinates CCD File 
SA [auth B]
TA [auth B]
UA [auth B]
V [auth A]
W [auth A]
SA [auth B],
TA [auth B],
UA [auth B],
V [auth A],
W [auth A],
X [auth A],
Y [auth A]
IODIDE ION
I
XMBWDFGMSWQBCA-UHFFFAOYSA-M
SO4
Query on SO4

Download Ideal Coordinates CCD File 
AA [auth B]
BA [auth B]
C [auth A]
CA [auth B]
D [auth A]
AA [auth B],
BA [auth B],
C [auth A],
CA [auth B],
D [auth A],
DA [auth B],
E [auth A],
EA [auth B],
F [auth A],
FA [auth B],
G [auth A],
GA [auth B],
H [auth A],
HA [auth B],
I [auth A],
IA [auth B],
J [auth A],
JA [auth B],
K [auth A],
KA [auth B],
L [auth A],
LA [auth B],
M [auth A],
MA [auth B],
N [auth A],
NA [auth B],
O [auth A],
OA [auth B],
P [auth A],
PA [auth B],
Q [auth A],
QA [auth B],
R [auth A],
RA [auth B],
S [auth A],
T [auth A],
U [auth A],
Z [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.61 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.209 
  • R-Value Observed: 0.211 
  • Space Group: P 6
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 244.152α = 90
b = 244.152β = 90
c = 42.217γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Chinese Key Research Plan-Protein SciencesChina2014CB910100
National Natural Science Foundation of ChinaChina31630046,31270762
Junior One Thousand Talents programChina--
National Science Foundation of ChinaChina31271423
863 ProgramChinaSS2015AA020406

Revision History  (Full details and data files)

  • Version 1.0: 2017-04-19
    Type: Initial release