2OA9 | pdb_00002oa9

Restriction endonuclease MvaI in the absence of DNA

X-RAY DIFFRACTION

---

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7.7	294	0.05 M CADMIUM SULFATE HYDRATE, 0.1 M HEPES PH 7.74, 1.2 M SODIUM ACETATE TRIHYDRATE, 0.17 M GLYCINE, VAPOR DIFFUSION, SITTING DROP, temperature 294K, pH 7.70

Crystal Properties
Matthews coefficient	Solvent content
2.28	45.98

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 58.499	α = 90
b = 63.281	β = 100.77
c = 71.892	γ = 90

Symmetry
Space Group	P 1 21 1

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	MARRESEARCH	BENT MIRROR	2006-05-18	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MPG/DESY, HAMBURG BEAMLINE BW6		MPG/DESY, HAMBURG	BW6

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.5	20	91.2	0.06	30.8	3.1		75246			19.8

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.5	1.52	99.6		0.23	4.1	2.6

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 (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.5	19.8	72535	72535	3629	93.9	0.186	0.184	0.212	0.212	0.2391	RANDOM	17.4

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]
1.06		-0.44	0.86		-2.09

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	6.63
r_scangle_it	3.979
r_scbond_it	2.66
r_mcangle_it	1.801
r_angle_refined_deg	1.525
r_mcbond_it	1.012
r_angle_other_deg	0.821
r_symmetry_vdw_other	0.336
r_nbd_other	0.251
r_symmetry_vdw_refined	0.239
r_symmetry_hbond_refined	0.233
r_nbd_refined	0.227
r_metal_ion_refined	0.211
r_xyhbond_nbd_refined	0.189
r_chiral_restr	0.1
r_nbtor_other	0.085
r_bond_refined_d	0.014
r_gen_planes_other	0.01
r_gen_planes_refined	0.008
r_bond_other_d	0.007
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3847
Nucleic Acid Atoms
Solvent Atoms	288
Heterogen Atoms	25

Software

Software
Software Name	Purpose
SHELXD	phasing
SHARP	phasing
NCSREF	model building
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
DM	phasing
ARP/wARP	model building