Experiment: 2PMZ

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	300	0.1 M Hepes (pH 7.5), 0.1 M K2CO3, 0.1M Na2S203, 12%(w/v) PEG10000, 2mM spermine, VAPOR DIFFUSION, HANGING DROP, temperature 300K

Crystal Properties
Matthews coefficient	Solvent content
3.23	61.88

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 125.82	α = 90
b = 201.235	β = 100.92
c = 196.05	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	100	IMAGE PLATE	RIGAKU RAXIS IV	Osmic confocal blue optics	2005-10-28	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RU200

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	3.4	40	80.1	0.097	10.3	1.9		105621

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	3.4	3.52	55.6		0.376	1.54	1.4	7294

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 (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	3.4	39.79	105616	5312	80.4	0.274	0.274	0.2739	0.343	RANDOM	93.8

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]
8.86		-17.75	7.29		-16.15

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.48
r_dihedral_angle_3_deg	22.296
r_dihedral_angle_4_deg	19.576
r_dihedral_angle_1_deg	7.278
r_scangle_it	1.835
r_angle_refined_deg	1.648
r_mcangle_it	1.339
r_scbond_it	1.052
r_mcbond_it	0.742
r_nbtor_refined	0.314

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.48
r_dihedral_angle_3_deg	22.296
r_dihedral_angle_4_deg	19.576
r_dihedral_angle_1_deg	7.278
r_scangle_it	1.835
r_angle_refined_deg	1.648
r_mcangle_it	1.339
r_scbond_it	1.052
r_mcbond_it	0.742
r_nbtor_refined	0.314
r_metal_ion_refined	0.297
r_nbd_refined	0.269
r_symmetry_vdw_refined	0.226
r_xyhbond_nbd_refined	0.205
r_symmetry_hbond_refined	0.168
r_chiral_restr	0.101
r_bond_refined_d	0.0091
r_gen_planes_refined	0.004

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	48098
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	24

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
PHASER	phasing
RESOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
HKL-2000	data reduction

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.