2B44

Truncated S. aureus LytM, P 32 2 1 crystal form

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1QWY

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	4.5	294	0.1 M Tris, 2.0 M monoammonium dihydrogen phosphate, pH 4.5, VAPOR DIFFUSION, SITTING DROP, temperature 294K

Crystal Properties
Matthews coefficient	Solvent content
5.26	76

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 100.434	α = 90
b = 100.434	β = 90
c = 103.038	γ = 120

Symmetry
Space Group	P 32 2 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray		CCD	MARRESEARCH		2004-11-23	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	MPG/DESY, HAMBURG BEAMLINE BW6	1.05	MPG/DESY, HAMBURG	BW6

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	1.83	20	97.6	0.063	0.063	27.6	3.3	51861	51861			31.9

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.83	1.86	96		0.244	0.244	4.7		2019

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	1QWY	1.83	19.25	49103	49103	2599	97.48	0.18131	0.18131	0.18069	0.19313	RANDOM	25.468

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]
0.25	0.12		0.25		-0.37

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.598
r_dihedral_angle_4_deg	29.571
r_dihedral_angle_3_deg	14.679
r_dihedral_angle_1_deg	7.596
r_angle_other_deg	3.997
r_scangle_it	3.645
r_scbond_it	3.149
r_mcangle_it	1.684
r_angle_refined_deg	1.592
r_mcbond_it	1.566
r_symmetry_vdw_other	0.252
r_nbd_other	0.23
r_nbd_refined	0.19
r_nbtor_refined	0.18
r_xyhbond_nbd_refined	0.14
r_symmetry_hbond_refined	0.134
r_nbtor_other	0.113
r_symmetry_vdw_refined	0.103
r_chiral_restr	0.1
r_metal_ion_refined	0.055
r_mcbond_other	0.033
r_bond_refined_d	0.014
r_gen_planes_other	0.008
r_gen_planes_refined	0.007
r_bond_other_d
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2021
Nucleic Acid Atoms
Solvent Atoms	188
Heterogen Atoms	17

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
MOLREP	phasing