Experiment: 3RG6

X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	8.7	277	15-17 % 2-methyl-2,4-pentanediol, 0.1 M KCl, 0.1 M Tris-HCl, pH 8.7, vapor diffusion, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
4.24	71.02

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 244.75	α = 90
b = 244.75	β = 90
c = 99.669	γ = 90

Symmetry
Space Group	I 4

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	ADSC QUANTUM 315r		2009-09-28	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID29	0.97908	ESRF	ID29

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	3.2	47.999	84.8	0.109	0.109	8.9	3.2	41265	41265

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	3.2	3.37	48.7		0.311	0.311	2.4	2.3	3393

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 (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 1RBL	3.2	30	43281	41214	2067	84.5	0.2175	0.216	0.22	0.2454	0.25	RANDOM	89.9627

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]
3.33			3.33		-6.66

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.153
r_dihedral_angle_3_deg	20.117
r_dihedral_angle_4_deg	17.329
r_dihedral_angle_1_deg	5.178
r_angle_refined_deg	1.073
r_scangle_it	0.954
r_scbond_it	0.546
r_mcangle_it	0.331
r_nbtor_refined	0.302
r_symmetry_vdw_refined	0.221

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.153
r_dihedral_angle_3_deg	20.117
r_dihedral_angle_4_deg	17.329
r_dihedral_angle_1_deg	5.178
r_angle_refined_deg	1.073
r_scangle_it	0.954
r_scbond_it	0.546
r_mcangle_it	0.331
r_nbtor_refined	0.302
r_symmetry_vdw_refined	0.221
r_nbd_refined	0.209
r_symmetry_hbond_refined	0.183
r_mcbond_it	0.174
r_xyhbond_nbd_refined	0.156
r_chiral_restr	0.074
r_bond_refined_d	0.007
r_gen_planes_refined	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	10078
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software Name	Purpose
SCALA	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
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.