2GRB | pdb_00002grb

Crystal Structure of an RNA Quadruplex Containing Inosine-tetrad

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	EVAPORATION	7	298	KCl, CaCl2, MPD , pH 7.0, EVAPORATION, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
1.82	32.38

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 29.06	α = 90
b = 52.738	β = 102.98
c = 37.344	γ = 90

Symmetry
Space Group	P 1 21 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray		CCD	ADSC QUANTUM 210		2003-07-09	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 14-BM-D	0.9195,0.9200,0.8984	APS	14-BM-D

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.4	30	95.3		6.87		23152

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.4	1.45	71.5

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	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	1.4	8	19509	19509	1006	95.23	0.19781	0.19781	0.19514	0.26	0.25002	0.29	RANDOM	29.058

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]
0.36		-1.66	-2.35		1.24

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	3.507
r_sphericity_bonded	3.436
r_scangle_it	3.07
r_angle_refined_deg	2.78
r_scbond_it	2.488
r_rigid_bond_restr	1.969
r_nbd_refined	0.351
r_chiral_restr	0.291
r_symmetry_metal_ion_refined	0.283
r_nbtor_refined	0.265
r_xyhbond_nbd_refined	0.254
r_metal_ion_refined	0.176
r_symmetry_vdw_refined	0.163
r_symmetry_hbond_refined	0.127
r_gen_planes_refined	0.012
r_bond_refined_d	0.01
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_1_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_other
r_mcbond_it
r_mcbond_other
r_mcangle_it

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms
Nucleic Acid Atoms	970
Solvent Atoms	178
Heterogen Atoms	12

Software

Software
Software Name	Purpose
REFMAC	refinement
ADSC	data collection
d*TREK	data scaling
SOLVE	phasing