Experiment: 2FGJ

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1XEF	pdb entry 1XEF

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.6	277	sodium malonate, PEG 5500-MME, sodium acetate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.5	50.81

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 46.558	α = 90
b = 195.166	β = 110.85
c = 63.288	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	CCD	MARRESEARCH			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MPG/DESY, HAMBURG BEAMLINE BW6	1.05	MPG/DESY, HAMBURG	BW6

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	2.6	20	96.4	0.057		10.2	25379	24465

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	2.6	2.65	93.2		0.193

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	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 1XEF	2.6	20	3.2	25738	24465	1298	96.4	0.21147	0.20778	0.27936	RANDOM	15.404

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]
4.53		-0.07	-0.36		-4.22

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.184
r_dihedral_angle_4_deg	20.385
r_dihedral_angle_3_deg	17.915
r_dihedral_angle_1_deg	5.3
r_angle_refined_deg	1.085
r_scangle_it	0.925
r_scbond_it	0.552
r_mcangle_it	0.492
r_mcbond_it	0.276
r_nbd_refined	0.199

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	40.184
r_dihedral_angle_4_deg	20.385
r_dihedral_angle_3_deg	17.915
r_dihedral_angle_1_deg	5.3
r_angle_refined_deg	1.085
r_scangle_it	0.925
r_scbond_it	0.552
r_mcangle_it	0.492
r_mcbond_it	0.276
r_nbd_refined	0.199
r_symmetry_hbond_refined	0.177
r_xyhbond_nbd_refined	0.162
r_symmetry_vdw_refined	0.149
r_chiral_restr	0.069
r_bond_refined_d	0.007
r_gen_planes_refined	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7552
Nucleic Acid Atoms
Solvent Atoms	196
Heterogen Atoms	124

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

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.