1RKY

PPLO + Xe

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1N9E	PPLO 1N9E chain A

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	300	35% MPD, Imidazole pH 8.0, 200mM MgCl2, VAPOR DIFFUSION, HANGING DROP, temperature 300K. CRYSTAL EXPOSED TO XENON AT 300 PSI FOR 90 SECONDS THEN FROZEN

Crystal Properties
Matthews coefficient	Solvent content
2.54	51.26

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 140.144	α = 90
b = 66.702	β = 119.24
c = 108.62	γ = 90

Symmetry
Space Group	C 1 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	100	CCD	ADSC QUANTUM 315	double crystal monochromator	2003-04-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL9-2	1.552	SSRL	BL9-2

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	1.68	31.46	87.7	0.09	11.9			99719			27

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.68	1.74	84.6		2.1

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PPLO 1N9E chain A	1.68	31.47	85763	1705	87.71	0.151	0.151	0.182	RANDOM	33.28

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]
-0.01		0.05	0.01		0.05

RMS Deviations
Key	Refinement Restraint Deviation
r_sphericity_free	21.586
r_scangle_it	10.416
r_scbond_it	8.042
r_dihedral_angle_1_deg	6.782
r_mcangle_it	6.501
r_mcbond_it	4.889
r_angle_refined_deg	1.403
r_angle_other_deg	0.834
r_symmetry_vdw_other	0.308
r_nbd_other	0.25
r_nbd_refined	0.192
r_symmetry_vdw_refined	0.167
r_symmetry_hbond_refined	0.135
r_xyhbond_nbd_refined	0.12
r_chiral_restr	0.093
r_metal_ion_refined	0.089
r_nbtor_other	0.083
r_bond_refined_d	0.012
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.002
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_other
r_symmetry_hbond_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5933
Nucleic Acid Atoms
Solvent Atoms	632
Heterogen Atoms	120

Software

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