Experiment: 9FB8

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6HPH

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		277.15	XChem 0.045uls compound (0.5M) in DMSO echo dispensed into crystal drop Drop = 0.3uls protein + 0.3us well +0.001uls seeds. Protein = 25uls 30mgs/ml human PIF1 (206-620) in 10mM Tris pH 7.5, 175mM NaCl, 2%glycerol, 5mM DTT, 0.1mM PMSF + 21uls 10mM Tris, 2.7uls 0.2M MgCl2, 5uls 100mM AMPPNP + 27uls H2O. Well = 4% Glycerol, 27% PEG 2KMME, 0.1M NaAcetate, 0.1M Tris pH8.5. Set up on douglas instruments robot - tray on ice - set-up room temperature - crystallised 4 degrees C.

Crystal Properties
Matthews coefficient	Solvent content
2.24	45.11

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 73.6	α = 90
b = 143.714	β = 90
c = 77.238	γ = 90

Symmetry
Space Group	C 2 2 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	PIXEL	DECTRIS PILATUS 6M-F		2018-03-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.91587	Diamond	I04-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	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	1.727	27.83	99.6	0.999	19.5	6.5		43220

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.73	1.77			0.866

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	THROUGHOUT	1.727	27.83	43195	2134	99.617	0.175	0.1734	0.1733	0.2114	0.2114	30.663

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]
-2.208			0.903		1.304

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.622
r_dihedral_angle_3_deg	13.335
r_dihedral_angle_2_deg	9.591
r_lrange_it	7.677
r_scangle_it	6.015
r_dihedral_angle_1_deg	5.641
r_scbond_it	4.131
r_mcangle_it	3.331
r_mcbond_it	2.479
r_angle_refined_deg	1.896

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_6_deg	16.622
r_dihedral_angle_3_deg	13.335
r_dihedral_angle_2_deg	9.591
r_lrange_it	7.677
r_scangle_it	6.015
r_dihedral_angle_1_deg	5.641
r_scbond_it	4.131
r_mcangle_it	3.331
r_mcbond_it	2.479
r_angle_refined_deg	1.896
r_nbtor_refined	0.309
r_nbd_refined	0.23
r_xyhbond_nbd_refined	0.189
r_symmetry_nbd_refined	0.165
r_symmetry_xyhbond_nbd_refined	0.14
r_chiral_restr	0.122
r_bond_refined_d	0.009
r_gen_planes_refined	0.009

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3150
Nucleic Acid Atoms
Solvent Atoms	373
Heterogen Atoms	68

Software

Software
Software Name	Purpose
REFMAC	refinement
DIALS	data reduction
DIALS	data scaling
REFMAC	phasing

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.