3EN1 | pdb_00003en1

Crystal structure of Toluene 2,3-Dioxygenase

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.1	296	40% (w/v) polyethylene glycol 600, 0.1 M sodium citrate pH 6.1, 20 50 mM Fe(NH4)2(SO4)2, 50 mM Toluene, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Properties
Matthews coefficient	Solvent content
7.36

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 234.531	α = 90
b = 234.531	β = 90
c = 234.531	γ = 90

Symmetry
Space Group	P 43 3 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 210	mirrors	2004-09-26	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1	0.933000	ESRF	ID14-1

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	165.839	99.9	0.116	0.116	6.003	24	36887	36887	1	1

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)
	3.2	3.37	100		0.381	0.381	2	24.7	5276

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	3.2	20	36694	1836	99.98	0.186	0.186	0.185	0.1833	0.208	0.2036	RANDOM	48.958

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	37.431
r_dihedral_angle_4_deg	20.864
r_dihedral_angle_3_deg	18.353
r_dihedral_angle_1_deg	7.173
r_scangle_it	2.71
r_scbond_it	1.569
r_angle_refined_deg	1.551
r_mcangle_it	1.278
r_mcbond_it	0.711
r_nbtor_refined	0.316
r_nbd_refined	0.221
r_symmetry_vdw_refined	0.213
r_symmetry_hbond_refined	0.161
r_xyhbond_nbd_refined	0.132
r_symmetry_metal_ion_refined	0.113
r_chiral_restr	0.111
r_bond_refined_d	0.014
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4872
Nucleic Acid Atoms
Solvent Atoms	18
Heterogen Atoms	27

Software

Software
Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
AMoRE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
ProDC	data collection