2D1E

Crystal structure of PcyA-biliverdin complex

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5	298	ammonium sulfate, sodium cacodylate, sodium chloride, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.6	51.6

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 70.826	α = 90
b = 94.997	β = 90
c = 42.675	γ = 90

Symmetry
Space Group	P 21 21 2

Diffraction

Diffraction Experiment
ID #	Crystal ID	Scattering Type	Data Collection Temperature	Detector	Detector Type	Details	Collection Date	Monochromator	Protocol
1	1	x-ray	100	CCD	ADSC QUANTUM 315		2005-06-06	M	SINGLE WAVELENGTH
2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SPRING-8 BEAMLINE BL41XU	1.0000	SPring-8	BL41XU

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	1.51	50	99.6	0.078		7.8	45715	45715

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	1.51	1.56	98	98	0.335		6.9

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	MIRAS	THROUGHOUT	1.51	47.67	45672	45672	2304	99.59	0.158	0.158	0.157	0.183	RANDOM	17.216

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]
0.04			-0.06		0.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.163
r_dihedral_angle_4_deg	16.618
r_dihedral_angle_3_deg	13.526
r_dihedral_angle_1_deg	6.227
r_scangle_it	4.274
r_scbond_it	2.652
r_mcangle_it	1.829
r_angle_refined_deg	1.704
r_angle_other_deg	1.038
r_mcbond_it	1.03
r_mcbond_other	0.29
r_metal_ion_refined	0.247
r_nbd_refined	0.229
r_symmetry_vdw_other	0.223
r_xyhbond_nbd_refined	0.196
r_nbd_other	0.193
r_symmetry_hbond_refined	0.188
r_nbtor_refined	0.185
r_symmetry_vdw_refined	0.113
r_chiral_restr	0.1
r_nbtor_other	0.089
r_gen_planes_other	0.02
r_bond_refined_d	0.017
r_gen_planes_refined	0.011
r_bond_other_d	0.003

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1934
Nucleic Acid Atoms
Solvent Atoms	363
Heterogen Atoms	44

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing
CNS	refinement
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction