5KOJ

Nitrogenase MoFeP protein in the IDS oxidized state

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	277	50% MPD , 300 mM NaCl, 100 mM Na Cacodylate, pH 6.5, 1 mM Spermine, and 0.43 mM Indigo Carmine

Crystal Properties
Matthews coefficient	Solvent content
2.97	58.53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 201.569	α = 90
b = 201.569	β = 90
c = 132.208	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	77	CCD	MARMOSAIC 325 mm CCD		2016-06-27	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL14-1	0.98	SSRL	BL14-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	R Sym I (Observed)	CC (Half)	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	2.592	39.59	100	0.411	0.4206	0.986	18	22.5		79965			37.65

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	2.592	2.684	99		1.65	0.548	2.61	21.5

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		THROUGHOUT	2.592	39.59	79965	4244	99.55	0.16999	0.16798	0.20805	RANDOM	40.232

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]
-1.34			-1.34		2.67

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.661
r_dihedral_angle_4_deg	19.746
r_dihedral_angle_3_deg	15.698
r_long_range_B_refined	6.992
r_long_range_B_other	6.99
r_dihedral_angle_1_deg	6.483
r_scangle_other	5.509
r_mcangle_it	4.034
r_mcangle_other	4.034
r_scbond_it	3.53
r_scbond_other	3.53
r_mcbond_it	2.677
r_mcbond_other	2.677
r_angle_refined_deg	1.723
r_angle_other_deg	1.612
r_chiral_restr	0.105
r_bond_refined_d	0.014
r_gen_planes_refined	0.008
r_bond_other_d	0.005
r_gen_planes_other	0.004
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	15616
Nucleic Acid Atoms
Solvent Atoms	358
Heterogen Atoms	96

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data scaling
Coot	model building
PHASER	phasing
Aimless	data scaling