3R2U | pdb_00003r2u

2.1 Angstrom Resolution Crystal Structure of Metallo-beta-lactamase from Staphylococcus aureus subsp. aureus COL

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		295	Protein: 7.6mG/mL, 0.25M Sodium chloride, 0.01M Tris, pH 8.3. Screen: Classics II, H1, 0.2M Magnesium chloride, 0.1M Tris, pH 8.5, 25% (w.v) PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Properties
Matthews coefficient	Solvent content
1.97	37.66

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 92.484	α = 90
b = 92.484	β = 90
c = 385.395	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	MARMOSAIC 300 mm CCD	Beryllium lenses	2011-02-17	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 21-ID-G	0.97856	APS	21-ID-G

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	2.1	30	100	0.086	20.3	6.2	98474	98474		-3	28.3

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)
	2.1	2.14	100		0.486	3.4	5.5	4798

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 (All)	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	2.1	29.98	93414	93414	4909	99.89	0.15845	0.15845	0.15638	0.17	0.19727	0.21	RANDOM	30.322

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]
0.37			0.37		-0.74

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.303
r_dihedral_angle_4_deg	18.062
r_dihedral_angle_3_deg	10.734
r_scangle_it	4.248
r_dihedral_angle_1_deg	3.379
r_scbond_it	2.755
r_mcangle_it	1.78
r_angle_refined_deg	1.398
r_mcbond_it	1.008
r_angle_other_deg	0.838

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.303
r_dihedral_angle_4_deg	18.062
r_dihedral_angle_3_deg	10.734
r_scangle_it	4.248
r_dihedral_angle_1_deg	3.379
r_scbond_it	2.755
r_mcangle_it	1.78
r_angle_refined_deg	1.398
r_mcbond_it	1.008
r_angle_other_deg	0.838
r_mcbond_other	0.279
r_chiral_restr	0.087
r_bond_refined_d	0.011
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	10720
Nucleic Acid Atoms
Solvent Atoms	1214
Heterogen Atoms	10

Software

Software
Software Name	Purpose
Blu-Ice	data collection
PHENIX	model building
REFMAC	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.