3EDN | pdb_00003edn

Crystal structure of the Bacillus anthracis phenazine biosynthesis protein, PhzF family

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION	7	293	2M NH4SO4, 5% isopropanol, pH 7.0, VAPOR DIFFUSION, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.19	43.95

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 60.089	α = 90
b = 65.638	β = 90
c = 150.17	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	105	CCD	MARMOSAIC 300 mm CCD		2008-08-07	M	SINGLE WAVELENGTH
2	1	x-ray		CCD	MARMOSAIC 300 mm CCD		2008-08-07	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 21-ID-G	0.97856	APS	21-ID-G
2	SYNCHROTRON	APS BEAMLINE 21-ID-D	0.97625	APS	21-ID-D

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	1.5	38.18	97.8	0.087	13	5	95606	93368	1.6	2.4	18.2

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)
	1.5	1.55	89.6		0.445	2.4	3.6	8426

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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 Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.5	38.18	95606	93368	4709	97.66	0.182	0.182	0.18	0.1821	0.219	RANDOM	18.204

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.465
r_dihedral_angle_4_deg	18.864
r_dihedral_angle_3_deg	12.574
r_dihedral_angle_1_deg	6.015
r_scangle_it	1.747
r_mcangle_it	1.587
r_scbond_it	1.242
r_angle_refined_deg	1.195
r_mcbond_it	1.094
r_nbtor_refined	0.318

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.465
r_dihedral_angle_4_deg	18.864
r_dihedral_angle_3_deg	12.574
r_dihedral_angle_1_deg	6.015
r_scangle_it	1.747
r_mcangle_it	1.587
r_scbond_it	1.242
r_angle_refined_deg	1.195
r_mcbond_it	1.094
r_nbtor_refined	0.318
r_nbd_refined	0.217
r_symmetry_vdw_refined	0.205
r_symmetry_hbond_refined	0.179
r_xyhbond_nbd_refined	0.161
r_chiral_restr	0.083
r_bond_refined_d	0.009
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4856
Nucleic Acid Atoms
Solvent Atoms	885
Heterogen Atoms	84

Software

Software
Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
BLU-MAX	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHARP	phasing

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.