4D0L

Phosphatidylinositol 4-kinase III beta-PIK93 in a complex with Rab11a- GTP gammaS

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3IHY	PDB ENTRIES 3IHY AND 1OIW
experimental model	PDB	1OIW	PDB ENTRIES 3IHY AND 1OIW

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		5.6		15% (W/V) PEG 4000, 0.1 M NA CITRATE PH 5.6, AND 0.2 M AMMONIUM ACETATE

Crystal Properties
Matthews coefficient	Solvent content
2.6	53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 102.795	α = 90
b = 146.925	β = 90
c = 188.335	γ = 90

Symmetry
Space Group	P 21 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	MARRESEARCH	MIRRORS	2013-12-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-2		ESRF	ID23-2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Net I Over Average Sigma (I)	Redundancy	Number Reflections (All)	Number Reflections (Observed)	Observed Criterion Sigma (F)	Observed Criterion Sigma (I)	B (Isotropic) From Wilson Plot
1	2.8	48.51	99.9	0.11	10.9	4.2		70875

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.8	2.86	99.9		1.04	1.1	4.3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRIES 3IHY AND 1OIW	2.94	115.84	58056	3095	99.54	0.21843	0.21626	0.2594	RANDOM	69.221

Temperature Factor Modeling
Anisotropic B[1][1]	Anisotropic B[1][2]	Anisotropic B[1][3]	Anisotropic B[2][2]	Anisotropic B[2][3]	Anisotropic B[3][3]
6			0.74		-6.75

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.023
r_dihedral_angle_3_deg	18.591
r_dihedral_angle_4_deg	17.473
r_scangle_it	7.139
r_mcangle_it	6.6
r_dihedral_angle_1_deg	6.459
r_scbond_it	4.434
r_mcbond_it	4.172
r_mcbond_other	4.172
r_angle_refined_deg	1.49
r_angle_other_deg	1.225
r_metal_ion_refined	0.305
r_xyhbond_nbd_other	0.304
r_symmetry_hbond_refined	0.298
r_xyhbond_nbd_refined	0.252
r_nbd_refined	0.248
r_symmetry_vdw_refined	0.243
r_symmetry_vdw_other	0.236
r_nbd_other	0.213
r_nbtor_refined	0.191
r_nbtor_other	0.091
r_chiral_restr	0.081
r_symmetry_hbond_other	0.053
r_bond_refined_d	0.01
r_gen_planes_refined	0.007
r_bond_other_d	0.005
r_gen_planes_other	0.005
r_metal_ion_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	15675
Nucleic Acid Atoms
Solvent Atoms	18
Heterogen Atoms	171

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing