1VPY

CRYSTAL STRUCTURE OF a DUF72 family protein (EF0366) FROM ENTEROCOCCUS FAECALIS V583 AT 2.52 A RESOLUTION

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP, NANODROP	4.5	277	10.0% PEG-3000, 0.2M Zn(OAc)2, 0.1M Acetate, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K, pH 4.5

Crystal Properties
Matthews coefficient	Solvent content
3.44	63.91

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 114.079	α = 90
b = 114.079	β = 90
c = 52.307	γ = 120

Symmetry
Space Group	P 65

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		2004-08-27	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.3.1	0.979694, 0.979571, 1.019859	ALS	8.3.1

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	2.52	28.52	99.9	0.18	9.1	6.5		13332			53.06

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	2.52	2.66	100		0.01038	1.8	6.5	1939

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	MAD	THROUGHOUT	2.52	28.52	12658	657	99.89	0.22652	0.22493	0.25697	RANDOM	38.918

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]
-2.01	-1.01		-2.01		3.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.524
r_dihedral_angle_4_deg	23.097
r_dihedral_angle_3_deg	15.235
r_dihedral_angle_1_deg	6.34
r_scangle_it	1.653
r_angle_refined_deg	1.306
r_scbond_it	1.246
r_mcangle_it	0.614
r_mcbond_it	0.383
r_nbtor_refined	0.307

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.524
r_dihedral_angle_4_deg	23.097
r_dihedral_angle_3_deg	15.235
r_dihedral_angle_1_deg	6.34
r_scangle_it	1.653
r_angle_refined_deg	1.306
r_scbond_it	1.246
r_mcangle_it	0.614
r_mcbond_it	0.383
r_nbtor_refined	0.307
r_symmetry_hbond_refined	0.262
r_nbd_refined	0.197
r_symmetry_vdw_refined	0.155
r_xyhbond_nbd_refined	0.123
r_chiral_restr	0.085
r_bond_refined_d	0.011
r_gen_planes_refined	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1998
Nucleic Acid Atoms
Solvent Atoms	37
Heterogen Atoms	8

Software

Software
Software Name	Purpose
MOSFLM	data reduction
SCALA	data scaling
SHARP	phasing
REFMAC	refinement
CCP4	data scaling

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 R01GM133198.