Experiment: 3MIY

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1SM2	PDB ENTRY 1SM2

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6	283	20% PEG3350, 0.2M AMMONIUM ACETATE, 0.1M BIS-TRIS, PH 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 283K

Crystal Properties
Matthews coefficient	Solvent content
2.16	43.04

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 39.479	α = 98.49
b = 52.053	β = 103.65
c = 66.106	γ = 92.84

Symmetry
Space Group	P 1

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	ADSC QUANTUM 315			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL7-1	1.0	SSRL	BL7-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	1.67	50	86.1	0.047	15.2		58467	53980			19.2

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.67	1.75	45.8		0.264	2.3		3350

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)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	THROUGHOUT	PDB ENTRY 1SM2	1.67	32.02	49551	2680	86.12	0.20805	0.20665	0.21	0.23391	0.23	RANDOM	21.301

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]
-0.51	-0.04	-0.33	-0.77	-1.05	0.81

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.087
r_dihedral_angle_4_deg	15.908
r_dihedral_angle_3_deg	12.987
r_dihedral_angle_1_deg	4.507
r_scangle_it	1.543
r_scbond_it	0.945
r_angle_refined_deg	0.913
r_mcangle_it	0.774
r_mcbond_it	0.446
r_nbtor_refined	0.298

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.087
r_dihedral_angle_4_deg	15.908
r_dihedral_angle_3_deg	12.987
r_dihedral_angle_1_deg	4.507
r_scangle_it	1.543
r_scbond_it	0.945
r_angle_refined_deg	0.913
r_mcangle_it	0.774
r_mcbond_it	0.446
r_nbtor_refined	0.298
r_nbd_refined	0.174
r_symmetry_vdw_refined	0.166
r_symmetry_hbond_refined	0.096
r_xyhbond_nbd_refined	0.091
r_chiral_restr	0.068
r_bond_refined_d	0.006
r_gen_planes_refined	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3798
Nucleic Acid Atoms
Solvent Atoms	307
Heterogen Atoms	58

Software

Software
Software Name	Purpose
ADSC	data collection
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

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.