Experiment: 2H1D

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	9.25	289	Crystallized at pH 6.5 (30% PEG 4,000, 0.1 M MES, 0.2 M Ammonium Acetate) but then crystal soaked in a cryoprotectant at pH9.25 (MES component replaced by CHES pH 9.25) prior to data collection. The structure therefore represents a 'high pH soak'. See publication for further details., VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Properties
Matthews coefficient	Solvent content
2.44	49.58

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 47.289	α = 90
b = 59.791	β = 90
c = 110.1	γ = 90

Symmetry
Space Group	P 21 21 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	CCD	MAR CCD 165 mm		2006-05-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID29	1.06880	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	2.4	40	97.2	0.094	0.094	6.5	3.5	9636	9636

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)
	2.6	2.74	98.6		0.247	0.247	2.6	3.5	1409

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1SU9	2.6	37.16	9625	9625	496	95.37	0.2	0.231	0.195	0.275	Copied free set from 1SU9 and extended with random reflections as required	15.412

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]
-0.01			-0.01		0.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.394
r_dihedral_angle_3_deg	17.923
r_dihedral_angle_4_deg	15.451
r_dihedral_angle_1_deg	7
r_scangle_it	4.291
r_scbond_it	2.754
r_angle_refined_deg	1.829
r_mcangle_it	1.536
r_mcbond_it	0.868
r_nbtor_refined	0.322

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.394
r_dihedral_angle_3_deg	17.923
r_dihedral_angle_4_deg	15.451
r_dihedral_angle_1_deg	7
r_scangle_it	4.291
r_scbond_it	2.754
r_angle_refined_deg	1.829
r_mcangle_it	1.536
r_mcbond_it	0.868
r_nbtor_refined	0.322
r_nbd_refined	0.222
r_symmetry_hbond_refined	0.219
r_symmetry_vdw_refined	0.199
r_xyhbond_nbd_refined	0.168
r_chiral_restr	0.109
r_bond_refined_d	0.019
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2157
Nucleic Acid Atoms
Solvent Atoms	45
Heterogen Atoms	4

Software

Software
Software Name	Purpose
SCALA	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ProDC	data collection
MOSFLM	data reduction
CCP4	data reduction
CCP4	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 R01GM133198.