4CT3 | pdb_00004ct3

Methylmercury chloride derivative structure of the lytic CHAPK domain of the endolysin LysK from Staphylococcus aureus bacteriophage K

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		6.5		25 MM TRIS-HCL, 22%(W/V) PEG 8000, 0.1 M 4-(2- HYDROXYETHYL)-1-PIPERAZINEETHANESULFONIC ACID (HEPES)-NAOH PH 6.5

Crystal Properties
Matthews coefficient	Solvent content
2.3	48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 39.02	α = 91.8
b = 61.52	β = 98.73
c = 72.8	γ = 90.01

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 PILATUS 6M	HORIZONTAL AND VERTICAL FOCUSSING MIRRORS AND SLITS	2013-05-03	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I02		Diamond	I02

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge 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	1.69	71.92	64.7	0.06	11.8	3.4		48498			14.9

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	1.69	1.78	10.4		0.62	1.8	3.2

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 (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	NONE	1.69	61.5	46067	2431	64.75	0.18291	0.18074	0.19	0.22407	0.23	RANDOM	22.28

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]
-0.72	0.09	0.84	-1.47	0.22	1.82

RMS Deviations
Key	Refinement Restraint Deviation
r_scangle_it	2.899
r_mcangle_it	2.458
r_scbond_it	1.835
r_mcbond_other	1.477
r_mcbond_it	1.476
r_angle_refined_deg	1.445
r_angle_other_deg	1.032
r_symmetry_vdw_refined	0.26
r_nbd_refined	0.254
r_metal_ion_refined	0.236
r_symmetry_hbond_refined	0.215
r_symmetry_vdw_other	0.197
r_nbtor_refined	0.183
r_nbd_other	0.178
r_xyhbond_nbd_refined	0.166
r_chiral_restr	0.133
r_nbtor_other	0.083
r_xyhbond_nbd_other	0.052
r_bond_refined_d	0.011
r_gen_planes_refined	0.007
r_symmetry_hbond_other	0.006
r_bond_other_d	0.005
r_gen_planes_other	0.005
r_dihedral_angle_1_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_metal_ion_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5208
Nucleic Acid Atoms
Solvent Atoms	770
Heterogen Atoms	132

Software

Software
Software Name	Purpose
REFMAC	refinement
xia2	data reduction
Aimless	data scaling
autoSHARP	phasing