1Y63 | pdb_00001y63

Initial crystal structural analysis of a probable kinase from Leishmania major Friedlin

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.2	293	PEG20000, MES, MnCl2, HEPES, NaCl, Glycerol, pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.63	53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 107.116	α = 90
b = 107.116	β = 90
c = 35.216	γ = 90

Symmetry
Space Group	P 4 21 2

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 210		2004-08-06	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.1	0.9198, 0.8856, 0.9202	ALS	8.2.1

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	1.55	38	99.2	0.06	14.5	6	30440	30411		-3	19.137

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)
1	1.55	1.63	94.8		0.564	2	3.1

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	1.7	38	21985	21985	1181	99.87	0.1665	0.1665	0.16492	0.18	0.19621	0.21	RANDOM	21.038

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]
-0.16			-0.16		0.33

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	31.532
r_dihedral_angle_4_deg	16.196
r_dihedral_angle_3_deg	12.775
r_scangle_it	5.249
r_dihedral_angle_1_deg	4.991
r_scbond_it	3.369
r_mcangle_it	2.893
r_mcbond_it	1.855
r_angle_refined_deg	1.467
r_angle_other_deg	0.83
r_mcbond_other	0.584
r_metal_ion_refined	0.303
r_symmetry_vdw_other	0.298
r_symmetry_vdw_refined	0.297
r_nbd_refined	0.226
r_symmetry_hbond_refined	0.216
r_nbd_other	0.188
r_nbtor_refined	0.176
r_chiral_restr	0.082
r_nbtor_other	0.082
r_bond_refined_d	0.011
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1366
Nucleic Acid Atoms
Solvent Atoms	157
Heterogen Atoms	42

Software

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