Experiment: 3HYD

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.5	298	20% MPD, 0.1M sodium citrate pH 5.5, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 49.478	α = 90
b = 4.838	β = 96.65
c = 19.442	γ = 90

Symmetry
Space Group	C 1 2 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	MARMOSAIC 225 mm CCD		2006-11-19	M	SINGLE WAVELENGTH
2	1	x-ray	100	CCD	MARMOSAIC 225 mm CCD		2006-11-19	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SLS BEAMLINE X10SA	0.97645	SLS	X10SA
2	SYNCHROTRON	SLS BEAMLINE X10SA	0.97645	SLS	X10SA

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	1	90	95.1	0.184	7.152	5	2647	2647		-3	6.6

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	1.08	84.7		0.361	3.26	3.7	433

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 (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	an idealized beta strand	1	16.14	2644	248	95.11	0.149	0.149	0.146	0.18	RANDOM	6.558

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]
0.04		-0.28	-0.55		0.45

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	23.57
r_sphericity_free	15.407
r_dihedral_angle_3_deg	10.059
r_dihedral_angle_1_deg	7.471
r_scangle_it	5.334
r_scbond_it	3.713
r_sphericity_bonded	3.708
r_mcangle_it	3.043
r_rigid_bond_restr	2.469
r_mcbond_it	2.258

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	23.57
r_sphericity_free	15.407
r_dihedral_angle_3_deg	10.059
r_dihedral_angle_1_deg	7.471
r_scangle_it	5.334
r_scbond_it	3.713
r_sphericity_bonded	3.708
r_mcangle_it	3.043
r_rigid_bond_restr	2.469
r_mcbond_it	2.258
r_angle_refined_deg	1.79
r_angle_other_deg	0.851
r_mcbond_other	0.821
r_chiral_restr	0.147
r_bond_refined_d	0.015
r_gen_planes_refined	0.006
r_bond_other_d	0.005
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	133
Nucleic Acid Atoms
Solvent Atoms	3
Heterogen Atoms

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.