3K6U | pdb_00003k6u

M. acetivorans Molybdate-Binding Protein (ModA) in Unliganded Open Form

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.4	293	1.4M tri-Ammonium Citrate, p6.4, vapor diffusion, sitting drop, temperature 293K
2	VAPOR DIFFUSION, SITTING DROP	6.4	293	1.6M tri-Ammonium Citrate, p6.4, soaked in 0.5M potassium iodide for 30 seconds, vapor diffusion, sitting drop, temperature 293K
3	VAPOR DIFFUSION, SITTING DROP	6.4	293	1.6M tri-Ammonium Citrate, p6.4, soaked in 1M cesium chloride for 18 minutes, vapor diffusion, sitting drop, temperature 293K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 82.179	α = 90
b = 82.179	β = 90
c = 104.94	γ = 120

Symmetry
Space Group	P 61

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 315		2004-11-21		SINGLE WAVELENGTH
2	1	x-ray	100	CCD	ADSC QUANTUM 315		2004-11-21		SINGLE WAVELENGTH
3	1	x-ray	100	IMAGE PLATE	RIGAKU RAXIS IV++		2004-11-23		SINGLE WAVELENGTH
1,2,3	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.2	0.954	ALS	8.2.2
2	SYNCHROTRON	ALS BEAMLINE 8.2.2	1.459	ALS	8.2.2
3	ROTATING ANODE	OTHER	1.542

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
1,2,3	1.94	38.26	99.9	0.092	0.079	18.6	10.86		29447

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)
1,2,3	1.94	2.01	100		0.5	0.468	10.43		2936

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MIRAS	THROUGHOUT	1.95	38.26	29271	1453	99.94	0.178	0.177	0.19	0.208	0.22	RANDOM	17.613

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]
0.93	0.46		0.93		-1.39

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.176
r_dihedral_angle_4_deg	21.826
r_dihedral_angle_3_deg	13.497
r_dihedral_angle_1_deg	5.982
r_scangle_it	4.318
r_scbond_it	2.613
r_mcangle_it	1.64
r_angle_refined_deg	1.392
r_mcbond_it	0.883
r_chiral_restr	0.108
r_bond_refined_d	0.015
r_gen_planes_refined	0.007

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2423
Nucleic Acid Atoms
Solvent Atoms	176
Heterogen Atoms

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
MLPHARE	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection