1VPM | pdb_00001vpm

Crystal structure of Acyl-CoA hydrolase (NP_241664.1) from Bacillus halodurans at 1.66 A resolution

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION,SITTING DROP,NANODROP		293	0.15M Na formate, 20.00% PEG 3350, 0.033M Cl2E9, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.4	48.39

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 82.984	α = 90
b = 106.507	β = 90
c = 120.254	γ = 90

Symmetry
Space Group	I 21 21 21

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		2004-10-09	M	MAD
2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.3.1	0.979764,1.019943,0.979648	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	1.66	28.75	99.5	0.099	13	5.9		62701			33.53

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	1.66	1.75	98.5		0.553	2.8	3.5	8969

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	MAD	THROUGHOUT	1.66	28.75	59512	3188	99.36	0.17146	0.17012	0.18	0.19669	0.2	RANDOM	26.825

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]
2.4			-0.37		-2.03

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.085
r_dihedral_angle_4_deg	18.924
r_dihedral_angle_3_deg	12.879
r_scangle_it	7.504
r_dihedral_angle_1_deg	6.613
r_scbond_it	5.79
r_mcangle_it	3.274
r_mcbond_it	2.635
r_angle_refined_deg	1.728
r_angle_other_deg	0.887
r_mcbond_other	0.691
r_nbd_refined	0.213
r_symmetry_vdw_other	0.213
r_xyhbond_nbd_refined	0.209
r_nbd_other	0.192
r_symmetry_hbond_refined	0.189
r_nbtor_refined	0.175
r_chiral_restr	0.102
r_nbtor_other	0.085
r_symmetry_vdw_refined	0.084
r_xyhbond_nbd_other	0.07
r_bond_refined_d	0.018
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3481
Nucleic Acid Atoms
Solvent Atoms	310
Heterogen Atoms	101

Software

Software
Software Name	Purpose
XDS	data scaling
SCALA	data scaling
SHELX	model building
REFMAC	refinement
XDS	data reduction
CCP4	data scaling
SHELX	phasing
SHARP	phasing
autoSHARP	phasing