7DP6

Crystal structure of mutant V45T Brugia malayi thymidylate synthase complexed with 2'-deoxyuridine monophosphate

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	8	273	0.1 M Tris-HCl, 20 mM betamercaptoethanol, 8%(w/v) PEG 4000

Crystal Properties
Matthews coefficient	Solvent content
2.85	56.77

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 80.72	α = 90
b = 80.72	β = 90
c = 104.445	γ = 120

Symmetry
Space Group	P 32 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	110	CCD	RAYONIX MX300-HS	DCM	2013-11-12	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	NSRRC BEAMLINE TPS 05A	1	NSRRC	TPS 05A

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	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	1.85	30	99.6	0.028	0.031	0.014	51.2	4.7		34055

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Rrim I (All)	Rpim I (All)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.85	1.92	100		0.496	0.56	0.257	0.876	3.47	4.7

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 (All)	R-Work	R-Free	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	1HVY	1.85	24.679	34007	1723	99.485	0.178	0.1764	0.206	40.835

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]
0.502	0.251		0.502		-1.628

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.298
r_dihedral_angle_4_deg	18.389
r_dihedral_angle_3_deg	12.787
r_lrange_it	7.95
r_lrange_other	7.9
r_dihedral_angle_1_deg	6.598
r_scangle_it	5.822
r_scangle_other	5.821
r_scbond_it	3.804
r_scbond_other	3.802
r_mcangle_it	3.66
r_mcangle_other	3.659
r_mcbond_it	2.671
r_mcbond_other	2.67
r_angle_refined_deg	1.427
r_angle_other_deg	1.331
r_xyhbond_nbd_refined	0.262
r_nbd_refined	0.216
r_nbd_other	0.214
r_symmetry_nbd_other	0.194
r_xyhbond_nbd_other	0.187
r_symmetry_nbd_refined	0.18
r_symmetry_xyhbond_nbd_refined	0.169
r_nbtor_refined	0.164
r_symmetry_nbtor_other	0.078
r_chiral_restr	0.064
r_bond_refined_d	0.007
r_gen_planes_refined	0.007
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2285
Nucleic Acid Atoms
Solvent Atoms	125
Heterogen Atoms	52

Software

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