Experiment: 4EEB

X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	277	Jeffamine M-600, CsCl, pH 6.5, temperature 277K, VAPOR DIFFUSION, HANGING DROP

Crystal Properties
Matthews coefficient	Solvent content
3.82	67.83

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 125.6	α = 90
b = 221.9	β = 90
c = 106.8	γ = 90

Symmetry
Space Group	P 21 21 2

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 CCD300		2010-01-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	CLSI BEAMLINE 08ID-1	0.97934	CLSI	08ID-1

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	3.8	19.92	80.4		4	24030	24030

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3.8	3.9	34.1		3.3	4.1	760

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 (All)	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	PDB ENTRY 2IUB	3.8	19.92	24030	24030	1189	80.39	0.3009	0.3009	0.2987	0.3	0.3434	0.35	RANDOM	159.6516

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]
9.3			-15.6		6.31

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.571
r_dihedral_angle_3_deg	19.101
r_dihedral_angle_4_deg	17.241
r_dihedral_angle_1_deg	6.83
r_scangle_it	1.507
r_mcangle_it	1.348
r_angle_refined_deg	1.336
r_angle_other_deg	0.919
r_scbond_it	0.796
r_mcbond_it	0.745

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	38.571
r_dihedral_angle_3_deg	19.101
r_dihedral_angle_4_deg	17.241
r_dihedral_angle_1_deg	6.83
r_scangle_it	1.507
r_mcangle_it	1.348
r_angle_refined_deg	1.336
r_angle_other_deg	0.919
r_scbond_it	0.796
r_mcbond_it	0.745
r_mcbond_other	0.074
r_chiral_restr	0.071
r_bond_refined_d	0.013
r_gen_planes_refined	0.006
r_bond_other_d	0.005
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	12978
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms	10

Software

Software
Software Name	Purpose
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
MxDC	data collection
XDS	data reduction
XSCALE	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.