9R1W | pdb_00009r1w

PLK1 SURFACE ENTROPY REDUCTION (SER) MUTANT IN COMPLEX WITH THIAZOLIDINONE INHIBITOR COMPOUND 1

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2V5Q

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	293	sodium acetate, ammonium sulphate, MES

Crystal Properties
Matthews coefficient	Solvent content
2.6	52.4

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 113.048	α = 90
b = 103.921	β = 115.435
c = 70.799	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	MAR CCD 165 mm		2007-05-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	BESSY BEAMLINE 14.2	0.9537	BESSY	14.2

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	2.2	36.9	87.7	0.08	14.5	3.5		32885			32.4

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	2.2	2.28	52.5		0.42	2	2.6

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	2.2	36.9	31239	1641	87.266	0.18	0.1779	0.1819	0.2158	0.2186	Random selection	61.67

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]
-1.245		1.24	-0.692		0.521

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.377
r_dihedral_angle_4_deg	15.169
r_dihedral_angle_3_deg	14.407
r_lrange_other	8.506
r_lrange_it	8.489
r_scangle_it	6.108
r_scangle_other	6.107
r_dihedral_angle_1_deg	5.98
r_mcangle_it	4.583
r_mcangle_other	4.583
r_scbond_it	3.886
r_scbond_other	3.885
r_mcbond_it	2.855
r_mcbond_other	2.851
r_angle_refined_deg	1.323
r_angle_other_deg	1.122
r_nbd_other	0.201
r_nbd_refined	0.188
r_symmetry_xyhbond_nbd_refined	0.186
r_symmetry_nbd_other	0.17
r_nbtor_refined	0.155
r_xyhbond_nbd_refined	0.146
r_symmetry_nbd_refined	0.12
r_ncsr_local_group_1	0.085
r_symmetry_nbtor_other	0.072
r_chiral_restr	0.055
r_symmetry_xyhbond_nbd_other	0.023
r_chiral_restr_other	0.022
r_bond_refined_d	0.005
r_xyhbond_nbd_other	0.005
r_gen_planes_refined	0.004
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4735
Nucleic Acid Atoms
Solvent Atoms	185
Heterogen Atoms	133

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
MOLREP	phasing