Experiment: 5T83

Structure of a guanidine-I riboswitch from S. acidophilus

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	MICROBATCH	4.6	296	RNA solution: 130 uM RNA in 10 mM MgCl2, 10 mM KCl, and 10 mM HEPES-KOH, pH 7.5; Reagent: 32% MPD, 40 mM SrCl2, 12 mM spermine, 40 mM sodium acetate, pH 4.6, and 0.8 mM iridium (III) hexamine; RNA solution and reagent mixed 1:1

Crystal Properties
Matthews coefficient	Solvent content
2.4	48.8

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 49.091	α = 90
b = 49.091	β = 90
c = 246.341	γ = 90

Symmetry
Space Group	P 43 21 2

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		2016-05-25	M	MAD
2	1	x-ray	100	CCD	ADSC QUANTUM 210r		2016-03-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.2	0.999946, 1.10532, 1.10482	ALS	8.2.2
2	SYNCHROTRON	APS BEAMLINE 19-BM	1.10062	APS	19-BM

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	2.7	40	99.8	0.074	15.2	6.9		15638

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	2.7	2.75	100		0.712		6.7

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	2.71	40	8451	434	99.1	0.202	0.2	0.2072	0.226	0.224	RANDOM	83.61

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]
4.35			4.35		-8.7

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms
Nucleic Acid Atoms	1917
Solvent Atoms	6
Heterogen Atoms	62

Software

Software
Software Name	Purpose
REFMAC	refinement
SCALEPACK	data scaling
PHENIX	phasing
PDB_EXTRACT	data extraction
HKL-2000	data reduction
Coot	model building