2OT4

Structure of a hexameric multiheme c nitrite reductase from the extremophile bacterium Thiolkalivibrio nitratireducens

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.6	278	The drop contained 5mkl of enzyme solution (14.5 mg/ml) in 0.005 M Tris-borat buffer (pH 8.7) and 5 mkl reservoir solution. The reservoir solution contained 26.3% MPD, 0.175 M ammonium acetate in 0.09 M sodium citrate buffer (pH 5.6), VAPOR DIFFUSION, HANGING DROP, temperature 278K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 193.917	α = 90
b = 193.917	β = 90
c = 193.917	γ = 90

Symmetry
Space Group	P 21 3

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			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	EMBL/DESY, HAMBURG BEAMLINE BW7A	0.96, 1.7375	EMBL/DESY, Hamburg	BW7A

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	1.5	30	97.4	0.036	17.1			373791			17.1

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	1.52	98.3		0.476			12460

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 (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.5	24.04	373155	11295	100	0.127	0.126	0.141	RANDOM	15.294

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	36.138
r_dihedral_angle_4_deg	17.981
r_dihedral_angle_3_deg	12.279
r_sphericity_free	7.897
r_dihedral_angle_1_deg	6.143
r_sphericity_bonded	3.902
r_scangle_it	3.561
r_scbond_it	2.685
r_mcangle_it	1.903
r_angle_refined_deg	1.575
r_rigid_bond_restr	1.423
r_mcbond_it	1.377
r_angle_other_deg	1.093
r_mcbond_other	0.692
r_symmetry_vdw_other	0.303
r_nbd_refined	0.222
r_nbd_other	0.204
r_nbtor_refined	0.192
r_symmetry_hbond_refined	0.191
r_symmetry_vdw_refined	0.141
r_xyhbond_nbd_refined	0.139
r_chiral_restr	0.096
r_nbtor_other	0.09
r_metal_ion_refined	0.032
r_bond_refined_d	0.019
r_gen_planes_refined	0.015
r_bond_other_d	0.002
r_gen_planes_other	0.002

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	8228
Nucleic Acid Atoms
Solvent Atoms	1217
Heterogen Atoms	759

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
SHELXS	phasing