2PUR

Structure of dihydrodipicolinate synthase mutant Thr44Ser at 1.7 A.

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	10	280	Drops contained: protein solution (~5 mg mL-1 in Tris.HCl 20 mM, pH 8, 2.5 uL), precipitant (K2HPO4 1.8 M, pH 10, 1.2 uL), and N-octyl-beta-R-glucopyranoside (6% w/v, 0.6 uL). Crystals appeared after 3-5 days and grew to dimensions of up to 0.2 mm., VAPOR DIFFUSION, HANGING DROP, temperature 280K

Crystal Properties
Matthews coefficient	Solvent content
3.71	66.86

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 121.04	α = 90
b = 121.04	β = 90
c = 110.319	γ = 120

Symmetry
Space Group	P 31 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	IMAGE PLATE	RIGAKU RAXIS IV			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU MICROMAX-007	1.5418

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	1.7	33.31	99.2	0.054	12.6	4.1		101750		3

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.7	1.76	100		0.38	3	3.91

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	1XYC, with residue 44 in each chain removed.	1.7	33.31	96628	5100	100	0.18049	0.1791	0.20733	RANDOM, THIN SHELL	22.34

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]
-0.43	-0.22		-0.43		0.65

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.573
r_dihedral_angle_4_deg	19.244
r_dihedral_angle_3_deg	12.138
r_dihedral_angle_1_deg	6.107
r_scangle_it	3.853
r_scbond_it	2.274
r_angle_refined_deg	1.469
r_mcangle_it	1.277
r_angle_other_deg	0.98
r_mcbond_it	0.705
r_symmetry_vdw_other	0.275
r_nbd_refined	0.237
r_mcbond_other	0.21
r_nbd_other	0.199
r_nbtor_refined	0.169
r_xyhbond_nbd_refined	0.163
r_symmetry_vdw_refined	0.131
r_metal_ion_refined	0.111
r_symmetry_hbond_refined	0.096
r_chiral_restr	0.089
r_nbtor_other	0.087
r_xyhbond_nbd_other	0.081
r_bond_refined_d	0.014
r_gen_planes_refined	0.006
r_bond_other_d	0.002
r_gen_planes_other	0.001
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4351
Nucleic Acid Atoms
Solvent Atoms	711
Heterogen Atoms	18

Software

Software
Software Name	Purpose
REFMAC	refinement
CrystalClear	data collection
d*TREK	data reduction
d*TREK	data scaling
AMoRE	phasing