Experiment: 6OGK

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	6C1Y	pdb entry 6c1y

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	6.5	291	50% precipitant mix 4, 0.1M buffer system 1, 0.06M divalents (morpheus A4)

Crystal Properties
Matthews coefficient	Solvent content
1.87	34.35

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 40.47	α = 90
b = 51.976	β = 90
c = 66.304	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	PIXEL	DECTRIS PILATUS3 6M		2018-09-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 5.0.1	0.97741	ALS	5.0.1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	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	1.6	40.91	99.8	0.06	0.065	0.026	1	17.5	6.1		18969

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.6	1.63	97.3		1.835	2.092	0.982	0.366		4.1	891

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	pdb entry 6c1y	1.65	40.9	15648	1773	99.96	0.2289	0.2259	0.2368	0.2552	0.2601	29.887

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]
0.67			-1.75		1.08

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	29.027
r_dihedral_angle_4_deg	24.813
r_dihedral_angle_3_deg	13.015
r_dihedral_angle_1_deg	6.407
r_angle_refined_deg	1.743
r_mcangle_it	1.649
r_angle_other_deg	1.524
r_mcbond_other	1.037
r_mcbond_it	1.036
r_chiral_restr	0.077

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	29.027
r_dihedral_angle_4_deg	24.813
r_dihedral_angle_3_deg	13.015
r_dihedral_angle_1_deg	6.407
r_angle_refined_deg	1.743
r_mcangle_it	1.649
r_angle_other_deg	1.524
r_mcbond_other	1.037
r_mcbond_it	1.036
r_chiral_restr	0.077
r_gen_planes_refined	0.018
r_bond_refined_d	0.011
r_gen_planes_other	0.008
r_bond_other_d	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	585
Nucleic Acid Atoms	487
Solvent Atoms	56
Heterogen Atoms	18

Software

Software
Software Name	Purpose
REFMAC	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	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.