2D40 | pdb_00002d40

Crystal Structure of Z3393 from Escherichia coli O157:H7

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	5.9	297	0.1M bisTris, 24% PEG 3350, pH 5.9, VAPOR DIFFUSION, HANGING DROP, temperature 297K

Crystal Properties
Matthews coefficient	Solvent content
1.9	36.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 54.134	α = 114.08
b = 76.075	β = 94.93
c = 85.464	γ = 108.11

Symmetry
Space Group	P 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	ADSC QUANTUM 210		2005-04-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSLS BEAMLINE X6A	0.979	NSLS	X6A

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	2.4	34.5	98	0.073	0.063	32	2.5	44440	43818	1	1

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	2.4	2.49	98		0.234	8	2.5

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	2.41	34.5	41627	39527	2100	100	0.17725	0.1734	0.188	0.24936	0.1801	RANDOM	27.271

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]
-0.36	0.57	1.49	-0.33	0.53	1.72

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	7.94
r_scangle_it	7.029
r_scbond_it	4.981
r_mcangle_it	3.256
r_angle_refined_deg	3.062
r_mcbond_it	1.957
r_angle_other_deg	1.46
r_symmetry_vdw_other	0.469
r_symmetry_vdw_refined	0.461
r_symmetry_hbond_refined	0.379
r_nbd_refined	0.378
r_nbd_other	0.297
r_xyhbond_nbd_refined	0.249
r_chiral_restr	0.224
r_nbtor_other	0.119
r_bond_refined_d	0.05
r_gen_planes_refined	0.018
r_gen_planes_other	0.014
r_bond_other_d	0.009
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_refined
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	9059
Nucleic Acid Atoms
Solvent Atoms	516
Heterogen Atoms	4

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling
PHENIX	phasing
SOLVE	phasing