2PG2 | pdb_00002pg2

Crystal structure of KSP in complex with ADP and thiophene containing inhibitor 15

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	1Q0B	PDB entry 1Q0B

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6	277	100 mM Bis-Tris (pH 6.0) 200 mM ammonium sulfate, and 18-20% PEG 3350. 10 mM SrCl2, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Properties
Matthews coefficient	Solvent content
2.71	54.63

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 161.064	α = 90
b = 80.35	β = 96.83
c = 69.313	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		CCD	ADSC QUANTUM 315			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 5.0.2	1.0	ALS	5.0.2

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (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	1.849	80.06					74875

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	MOLECULAR REPLACEMENT	THROUGHOUT	PDB entry 1Q0B	1.849	80.06	70951	3760	99.5	0.21166	0.20967	0.21	0.24809	0.24	RANDOM	30.897

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]
0.21		-0.32	-0.58		0.3

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.203
r_dihedral_angle_4_deg	17.352
r_dihedral_angle_3_deg	16.821
r_dihedral_angle_1_deg	6.189
r_scangle_it	4.083
r_scbond_it	2.668
r_angle_refined_deg	1.965
r_mcangle_it	1.817
r_mcbond_it	1.147
r_nbtor_refined	0.304
r_nbd_refined	0.222
r_symmetry_vdw_refined	0.166
r_xyhbond_nbd_refined	0.156
r_symmetry_hbond_refined	0.138
r_chiral_restr	0.124
r_bond_refined_d	0.016
r_gen_planes_refined	0.015
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	5198
Nucleic Acid Atoms
Solvent Atoms	474
Heterogen Atoms	104

Software

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