Experiment: 2HBB

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	291	10 mM Imidazole (pH 8.0), 200 mM Zn Acetate, 2.5 M NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 291K

Crystal Properties
Matthews coefficient	Solvent content
2.37	48.21

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 53.918	α = 90
b = 53.918	β = 90
c = 36.339	γ = 90

Symmetry
Space Group	P 41 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	ADSC QUANTUM 4		2006-03-02		Single wavelenth
2	1	x-ray
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X26C	1.1	NSLS	X26C

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	1.86	50	98.1	0.079	16.4	7.5		4752

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1,2	1.86	1.93	85.8		0.345		6	406

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	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	1.9	20	4526	202	99.6	0.199	0.199	0.197	0.236	RANDOM	20.226

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]
-0.04			-0.04		0.08

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	43.275
r_dihedral_angle_3_deg	16.258
r_scangle_it	5.797
r_dihedral_angle_1_deg	4.636
r_scbond_it	3.29
r_mcangle_it	1.915
r_angle_refined_deg	1.509
r_mcbond_it	1.151
r_xyhbond_nbd_refined	0.394
r_symmetry_hbond_refined	0.353

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	43.275
r_dihedral_angle_3_deg	16.258
r_scangle_it	5.797
r_dihedral_angle_1_deg	4.636
r_scbond_it	3.29
r_mcangle_it	1.915
r_angle_refined_deg	1.509
r_mcbond_it	1.151
r_xyhbond_nbd_refined	0.394
r_symmetry_hbond_refined	0.353
r_nbtor_refined	0.313
r_nbd_refined	0.221
r_symmetry_vdw_refined	0.205
r_chiral_restr	0.096
r_symmetry_metal_ion_refined	0.081
r_metal_ion_refined	0.06
r_bond_refined_d	0.015
r_gen_planes_refined	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	390
Nucleic Acid Atoms
Solvent Atoms	52
Heterogen Atoms	4

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.