Experiment: 3F2U

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	3DM1

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	7.5	298	30% PEG 400, 0.2M CaCl2 0.1M Na Hepes 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
1.98	37.86

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 51.057	α = 90
b = 39.068	β = 137.03
c = 37.832	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 300 mm CCD			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 23-ID-B	0.97625	APS	23-ID-B

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	40				4815	4818

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	3DM1	1.8	27.18	4660	219	96.74	0.224	0.222	0.22	0.274	0.28	RANDOM	11.545

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]
0.97		1.78	-1.2		2.82

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.944
r_dihedral_angle_4_deg	13.996
r_dihedral_angle_3_deg	11.622
r_dihedral_angle_1_deg	6.397
r_scangle_it	3.111
r_scbond_it	2.314
r_angle_refined_deg	1.623
r_mcangle_it	1.346
r_mcbond_it	0.962
r_symmetry_hbond_refined	0.393

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.944
r_dihedral_angle_4_deg	13.996
r_dihedral_angle_3_deg	11.622
r_dihedral_angle_1_deg	6.397
r_scangle_it	3.111
r_scbond_it	2.314
r_angle_refined_deg	1.623
r_mcangle_it	1.346
r_mcbond_it	0.962
r_symmetry_hbond_refined	0.393
r_symmetry_vdw_refined	0.36
r_nbtor_refined	0.311
r_xyhbond_nbd_refined	0.23
r_nbd_refined	0.223
r_chiral_restr	0.106
r_bond_refined_d	0.019
r_gen_planes_refined	0.009

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	393
Nucleic Acid Atoms
Solvent Atoms	28
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction

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.