7B6K

Crystal structure of MurE from E.coli in complex with Z57715447

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	7B53

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	5.5	294	0.1M citrate pH 5.5 21% PEG4K 22% 2-propanol

Crystal Properties
Matthews coefficient	Solvent content
2.29	46.36

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 58.693	α = 97.098
b = 58.903	β = 91.201
c = 74.011	γ = 104.598

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	PIXEL	DECTRIS PILATUS3 S 6M		2018-07-13	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I04-1	0.91587	Diamond	I04-1

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	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	1.77	73.27	95.1	0.999	8.2	1.8		87747

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.77	1.87			0.45

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	7B53	1.838	73.27	79052	4051	95.562	0.208	0.2057	0.2559	38.445

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]
-0.035	1.49	-0.701	0.917	0.832	-1.89

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	30.859
r_dihedral_angle_4_deg	14.953
r_dihedral_angle_3_deg	13.499
r_lrange_it	7.186
r_lrange_other	7.174
r_dihedral_angle_1_deg	6.776
r_scangle_it	5.677
r_scangle_other	5.676
r_mcangle_it	4.268
r_mcangle_other	4.267
r_scbond_it	3.796
r_scbond_other	3.785
r_mcbond_it	3.093
r_mcbond_other	3.093
r_angle_refined_deg	1.512
r_angle_other_deg	1.328
r_symmetry_nbd_refined	0.304
r_symmetry_xyhbond_nbd_refined	0.259
r_nbd_other	0.233
r_nbd_refined	0.204
r_symmetry_nbd_other	0.174
r_xyhbond_nbd_refined	0.166
r_nbtor_refined	0.154
r_symmetry_nbtor_other	0.077
r_chiral_restr	0.067
r_bond_refined_d	0.008
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	7215
Nucleic Acid Atoms
Solvent Atoms	320
Heterogen Atoms	72

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
xia2	data scaling
PHASER	phasing