Experiment: 3EFM

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2O5P	PDB ENTRY 2O5P

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	293	0.75% C8E4, 0.1M HEPES, pH7.5, 0.3-0.5M NH4SO4, 13-17% MPD, protein concentration 10mg/ml, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
3.11	60.42

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 165.893	α = 90
b = 188.847	β = 90
c = 62.437	γ = 90

Symmetry
Space Group	C 2 2 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	FLAT PANEL			2008-05-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SOLEIL BEAMLINE PROXIMA 1	0.9789	SOLEIL	PROXIMA 1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	2.33	29.42	99.8	0.066				42320		-3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.33	2.4	100		0.724

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 2O5P	2.33	29.35	40176	40176	2141	100	0.22091	0.21892	0.25843	RANDOM	45.904

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]
1.06			-2.96		1.89

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.776
r_dihedral_angle_4_deg	18
r_dihedral_angle_3_deg	16.054
r_dihedral_angle_1_deg	7.253
r_scangle_it	3.498
r_scbond_it	2.249
r_angle_refined_deg	1.565
r_mcangle_it	1.539
r_mcbond_it	0.91
r_nbtor_refined	0.3

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.776
r_dihedral_angle_4_deg	18
r_dihedral_angle_3_deg	16.054
r_dihedral_angle_1_deg	7.253
r_scangle_it	3.498
r_scbond_it	2.249
r_angle_refined_deg	1.565
r_mcangle_it	1.539
r_mcbond_it	0.91
r_nbtor_refined	0.3
r_symmetry_hbond_refined	0.219
r_nbd_refined	0.212
r_symmetry_vdw_refined	0.182
r_xyhbond_nbd_refined	0.172
r_chiral_restr	0.101
r_bond_refined_d	0.015
r_gen_planes_refined	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4384
Nucleic Acid Atoms
Solvent Atoms	136
Heterogen Atoms	10

Software

Software
Software Name	Purpose
MOLREP	phasing
REFMAC	refinement
XDS	data reduction
XDS	data scaling

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.