1R3R

Uroporphyrinogen Decarboxylase with mutation D86N

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	LIQUID DIFFUSION	6.5	294	The crystal trial was conducted in an anaerobic chamber, with PBG, PBG-D added to the solution. These conditions are conducive to formation of an enzyme product complex, as the enzyme is typically active under these conditions (see related strcuture 1R3Q). There is not a ligand bound in this structure. 1.5 M citrate, pH 6.5, LIQUID DIFFUSION, temperature 294K

Crystal Properties
Matthews coefficient	Solvent content
2.37	47.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 102.735	α = 90
b = 102.735	β = 90
c = 73.426	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	100	IMAGE PLATE	RIGAKU RAXIS IIC		2003-06-15	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	ROTATING ANODE	RIGAKU RU200	1.5418

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.85	87.71	96	0.083	0.083	9	5	36928	36928

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	1.85	1.92	80		0.437	0.437	2.8	5

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 (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	FOURIER SYNTHESIS	THROUGHOUT	1URO	1.85	87.71	36928	35762	1122	95.81	0.16212	0.16212	0.16117	0.19242	RANDOM	20.283

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]
-1.53	-0.77		-1.53		2.3

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_1_deg	5.737
r_scangle_it	5.177
r_scbond_it	3.091
r_mcangle_it	2.019
r_angle_refined_deg	1.69
r_mcbond_it	1.119
r_angle_other_deg	0.961
r_symmetry_vdw_refined	0.42
r_symmetry_vdw_other	0.353
r_nbd_other	0.25
r_nbd_refined	0.231
r_xyhbond_nbd_refined	0.205
r_symmetry_hbond_refined	0.194
r_chiral_restr	0.106
r_nbtor_other	0.087
r_bond_refined_d	0.02
r_gen_planes_other	0.016
r_gen_planes_refined	0.013
r_bond_other_d	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2989
Nucleic Acid Atoms
Solvent Atoms	381
Heterogen Atoms

Software

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