1RTU | pdb_00001rtu

USTILAGO SPHAEROGENA RIBONUCLEASE U2

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1RNT	RNASE T1 (PDB ENTRY 1RNT)

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	4.5	293	CRYSTALS WERE PREPARED BY HANGING-DROP VAPOUR-DIFFUSION METHOD AT 293 KELVIN FROM A 20 MG/ML PROTEIN SOLUTION CONTAINING 15 MG/ML 2'-DEOXY 2'-FLUORO ADENYLYL-3',5'-CYTIDINE, 0.4M AMMONIUM SULFATE, EQUILIBRATED AGAINST A RESERVOIR OF 0.9M AMMONIUM SULFATE CONTAINING 0.1M ACETATE BUFFER (PH 4.5)., vapor diffusion - hanging drop

Crystal Properties
Matthews coefficient	Solvent content
2.13	42.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 49.32	α = 90
b = 61.27	β = 90
c = 34.95	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	284	IMAGE PLATE	FUJI	DOUBLE FOCUSSING MIRROR	1990-05-22	M

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	PHOTON FACTORY		Photon Factory

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	1.8	12	96.1	0.0342		4		9903		1

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	1.8	1.87	86.4		0.077		3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	RNASE T1 (PDB ENTRY 1RNT)	1.8	8	9807	9807		96.5	0.143		0.14		13.4

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]

RMS Deviations
Key	Refinement Restraint Deviation
p_transverse_tor	25.2
p_staggered_tor	12.4
p_scangle_it	2.72
p_planar_tor	2.6
p_scbond_it	1.73
p_mcangle_it	1.214
p_mcbond_it	0.76
p_xyhbond_nbd	0.173
p_chiral_restr	0.17
p_singtor_nbd	0.157
p_multtor_nbd	0.147
p_planar_d	0.041
p_angle_d	0.028
p_bond_d	0.014
p_plane_restr	0.014
p_angle_deg
p_hb_or_metal_coord
p_xhyhbond_nbd
p_orthonormal_tor
p_special_tor

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	870
Nucleic Acid Atoms
Solvent Atoms	141
Heterogen Atoms	5

Software

Software
Software Name	Purpose
OSCMGR	data collection
TOMOKO	data reduction
MARIKO	data reduction
X-PLOR	model building
PROLSQ	refinement
X-PLOR	refinement
OSC	data reduction
A	data scaling
MARIKO	data scaling
X-PLOR	phasing