1VJU | pdb_00001vju

Coproporphyrinogen III oxidase from Leishmania major

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	290	0.4 ul protein 19 mg/ml, 0.4 ul crystallization buffer: 29% PEG 5000MME, 200 mM Ammonium sulfate, 100 mM MES, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 290K

Crystal Properties
Matthews coefficient	Solvent content
2.4	48

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 52.649	α = 86.456
b = 53.734	β = 77.126
c = 66.627	γ = 61.501

Symmetry
Space Group	P 1

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray		CCD	ADSC QUANTUM 210		2004-02-08	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ALS BEAMLINE 8.2.1		ALS	8.2.1

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	1.401	64.55	95.1	0.074	7.64	3.85	238100	116623

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)
	1.4	1.43	92.9		0.51	2.1	3.6

Refinement

Statistics
Diffraction ID	Structure Solution Method	Resolution (High)	Resolution (Low)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	Mean Isotropic B
X-RAY DIFFRACTION		1.401	40	116622	5858		0.1514	0.1713	0.1804	0.1981	15.325

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]
0.007	-0.287	0.281	0.314	-0.06	-0.165

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.124
r_dihedral_angle_4_deg	15.844
r_dihedral_angle_3_deg	13.563
r_dihedral_angle_1_deg	5.979
r_scangle_it	5.333
r_scbond_it	3.747
r_mcangle_it	3.491
r_mcbond_it	2.836
r_scangle_other	2.689
r_angle_refined_deg	2.522
r_mcangle_other	2.072
r_scbond_other	1.288
r_angle_other_deg	1.077
r_mcbond_other	0.67
r_symmetry_vdw_refined	0.435
r_symmetry_vdw_other	0.281
r_nbd_refined	0.233
r_nbd_other	0.213
r_nbtor_refined	0.208
r_xyhbond_nbd_refined	0.167
r_chiral_restr	0.149
r_symmetry_hbond_refined	0.141
r_nbtor_other	0.1
r_xyhbond_nbd_other	0.031
r_bond_refined_d	0.021
r_gen_planes_refined	0.008
r_bond_other_d	0.001
r_gen_planes_other

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4694
Nucleic Acid Atoms
Solvent Atoms	644
Heterogen Atoms

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
SHELX	phasing
RESOLVE	phasing
REFMAC	refinement
SHELXD	phasing