3QMP | pdb_00003qmp

Selenium SAD structure solution of proteinase K grown in SO4-less solution and soaked in selenate.

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	293	UL OF 40 MG/ML PROTEIN AND 1 UL OF WELL SOLUTION: 10 MM CACL2, 500 MM NANO3, 100 MM NA CACODYLATE. Crystal soaked in 33 % (V/V) glycerol, 0.33 M NaSeO4 and 33 % (V/V) mother liquor., pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.04	39.65

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 67.967	α = 90
b = 67.967	β = 90
c = 102.215	γ = 90

Symmetry
Space Group	P 43 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	100	CCD	ADSC QUANTUM 270	SI(111) CHANNEL CUT MONO AND RH COATED TORROIDAL FOCUSING MIRROR.	2010-11-25	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X6A	0.9788	NSLS	X6A

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	1.1	20	99.9	0.118	32.8	15	97410	97410	2	2	4.3

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	1.1	1.12	99.8		0.549	6.5	14.2	4800

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	SAD	THROUGHOUT	1.1	19.81	92347	4865	100	0.10352	0.10272	0.104	0.11867	0.118	RANDOM	4.975

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]
-0.1			-0.1		0.21

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.905
r_dihedral_angle_4_deg	16.422
r_dihedral_angle_3_deg	11.443
r_dihedral_angle_1_deg	6.164
r_sphericity_free	4.363
r_scangle_it	2.729
r_sphericity_bonded	1.9
r_scbond_it	1.846
r_angle_refined_deg	1.398
r_mcangle_it	1.291
r_angle_other_deg	0.893
r_mcbond_it	0.842
r_rigid_bond_restr	0.728
r_mcbond_other	0.338
r_chiral_restr	0.088
r_bond_refined_d	0.007
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2032
Nucleic Acid Atoms
Solvent Atoms	458
Heterogen Atoms	15

Software

Software
Software Name	Purpose
DCS_X6A	data collection
SHELXS	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling