1IA0

KIF1A HEAD-MICROTUBULE COMPLEX STRUCTURE IN ATP-FORM

ELECTRON MICROSCOPY

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1TUB

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	polymerization of the microtubule	6.8	296	pH 6.8, polymerization of the microtubule, temperature 296K

Sample
KIF1A HEAD DECORATED MICROTUBULE

Specimen Preparation
Sample Aggregation State	FILAMENT
Vitrification Instrument
Cryogen Name
Sample Vitrification Details	PLUNGED INTO ETHANE

3D Reconstruction
Reconstruction Method	HELICAL
Number of Particles	37000
Reported Resolution (Å)	15
Resolution Method
Other Details	THREE-DIMENSIONAL RECONSTRUCTION METHOD: FOURIER-BESSEL-TRANSFORM (DEROSIER AND MOORE, 1970 J.MOL.BIOL ...	THREE-DIMENSIONAL RECONSTRUCTION METHOD: FOURIER-BESSEL-TRANSFORM (DEROSIER AND MOORE, 1970 J.MOL.BIOL. 52, 355-369; BEROUKHIM AND UNWIN, 1997 ULTRAMICROSCOPY 70, 57-81). Software used: MRC PROGRAMS. EFFECTIVE RESOLUTION OF THE RECONSTRUCTION: THE RESOLUTION OF THE FINAL RECONSTRUCTED DENSITY WAS DETERMINED TO BE AT LEAST 15 ANGSTROMS, AS MEASURED BY RANDOMLY SPLITTING THE PARTICLES INTO TWO SETS AND CALCULATING THE FOURIER SHELL CORRELATIONS BETWEEN THE TWO INDEPENDENT SET. (HEEL, 1987, ULTRAMICROSCOPY 21, 95-100). 1IA0 is an atomic model of KIF1A head-microtubule complex, which contains KIF1A, alpha-tubulin, and beta-tubulin. Since alpha- and beta-tubulin were indistinguishable at 15A resolution, the assignment of alpha- and beta-tubulin was arbitrary when 1IA0 was deposited. Authors state that they were aware of the limitation and didn't mention about the assignment of alpha- and beta-tubulin in the relevant 2001 Nature paper. Therefore, the main conclusions in the paper are still hold true. However, subsequently the assignment of alpha- and beta-tubulin turned out to be wrong and should be swapped. For the correct assignment and better structures, please use 2HXF. This is based on higher resolution (10 ) structure, which was published in EMBO J. 2006. 25:4187-4194.
Refinement Type
Symmetry Type	HELICAL

Map-Model Fitting and Refinement
Id	1 (1TUB)
Refinement Space	REAL
Refinement Protocol	RIGID BODY FIT
Refinement Target	MAXIMUM CORRELATION
Overall B Value
Fitting Procedure
Details	REFINEMENT PROTOCOL--RIGID BODY REFINEMENT

Data Acquisition
Detector Type	KODAK SO-163 FILM
Electron Dose (electrons/Å**2)	10

Imaging Experiment	1
Date of Experiment	1998-07-01
Temperature (Kelvin)	110
Microscope Model	JEOL 2010F
Minimum Defocus (nm)	1700
Maximum Defocus (nm)	3000
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)	2
Nominal CS	3.3
Imaging Mode	BRIGHT FIELD
Specimen Holder Model
Nominal Magnification	40000
Calibrated Magnification
Source	FIELD EMISSION GUN
Acceleration Voltage (kV)	200
Imaging Details

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.