3B5L

Crystal Structure of a Novel Engineered Retroaldolase: RA-61

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	298	1.9M Ammonium Sulfate, 0.1M MES pH 6.5, 5% v/v PEG400, VAPOR DIFFUSION, HANGING DROP, temperature 298K
2	VAPOR DIFFUSION, HANGING DROP	6.5	298	2.0M Ammonium Sulfate, 0.1M MES pH 6.5, 5% v/v PEG400, VAPOR DIFFUSION, HANGING DROP, temperature 298K
3	VAPOR DIFFUSION, HANGING DROP	6.5	298	2.1M Ammonium Sulfate, 0.1M MES pH 6.5, 5% v/v PEG400, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 39.19	α = 90
b = 66.06	β = 90
c = 66.07	γ = 90

Symmetry
Space Group	P 21 21 21

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	IMAGE PLATE	RIGAKU RAXIS IV	Mirrors	2007-10-01	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU MICROMAX-007	1.54

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	1.8	46.73	97.5	0.059	12	3.49	16489	16082			29.9

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	1.8	1.86	83.3		0.22	3.1	2.45	1347

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	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	TRUNCATED 1m4w	1.8	33.71	16082	16082	819	97.53	0.206	0.203	0.248	RANDOM	17.723

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]
0.73			-0.12		-0.61

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.423
r_dihedral_angle_4_deg	11.772
r_dihedral_angle_3_deg	10.634
r_dihedral_angle_1_deg	7.317
r_scangle_it	1.136
r_angle_refined_deg	1.069
r_scbond_it	0.835
r_mcangle_it	0.539
r_mcbond_it	0.313
r_nbtor_refined	0.301
r_nbd_refined	0.171
r_symmetry_vdw_refined	0.17
r_xyhbond_nbd_refined	0.1
r_symmetry_hbond_refined	0.079
r_chiral_restr	0.071
r_bond_refined_d	0.007
r_gen_planes_refined	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1532
Nucleic Acid Atoms
Solvent Atoms	174
Heterogen Atoms	12

Software

Software
Software Name	Purpose
d*TREK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
CrystalClear	data collection
CrystalClear	data reduction