1T5R

STRUCTURE OF THE PANTON-VALENTINE LEUCOCIDIN S COMPONENT FROM STAPHYLOCOCCUS AUREUS

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	285	CRYSTALLIZATION CONDITIONS: VAPOR EQUILIBRIUM USING THE HANGING METHOD AT 285K. THE PROTEINS WERE CONCENTRATED AT 20-25 MG/ML IN MES-NAOH PH 6.0 (50MM), NACL (50MM). DROPS WERE PREPARED BY MIXING EQUAL VOLUMES OF PROTEIN AND RESERVOIR SOLUTIONS AND USING RESERVOIR VOLUMES OF 500 microL CONTAINING 30% JEFFAMINE M-600, 0.1 M TRIS-HCL AT PH VALUES RANGING FROM 8.0 TO 8.9. MICRO- AND MACRO-SEEDING TECHNIQUES, INCLUDING CROSS-SEEDINGS, WERE USED TO GROW CRYSTALS. CRYSTAL SIZE (200X200X200 MM3) IN 6-10microL HANGING DROPS. , VAPOR DIFFUSION, HANGING DROP

Crystal Properties
Matthews coefficient	Solvent content
2.7	54

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 94.85	α = 90
b = 94.85	β = 90
c = 306.11	γ = 90

Symmetry
Space Group	P 43

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 4	bent multilayer	2002-11-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1	0.9340	ESRF	ID14-1

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	35.5	93.6	0.055	9.1	5.9	169450	169450			34.3

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)
	2	2.11	67.5		0.47	1.6	2.5	16649

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Cut-off Sigma (F)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 1PVL	2	35.5	3	169349	136851	13575	75.6	0.226	0.209	0.247	random	36.3

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]
1.89	1.89	-3.79

RMS Deviations
Key	Refinement Restraint Deviation
c_dihedral_angle_deg	27.7
c_scangle_it	2.9
c_scbond_it	2.07
c_mcangle_it	2.04
c_mcbond_it	1.36
c_angle_deg	1.3
c_improper_angle_deg	0.65
c_bond_d	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	17092
Nucleic Acid Atoms
Solvent Atoms	821
Heterogen Atoms

Software

Software
Software Name	Purpose
MOLREP	phasing
MOSFLM	data reduction
CCP4	data scaling
CNS	refinement

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.