4CZ1 | pdb_00004cz1

Crystal structure of kynurenine formamidase from Bacillus anthracis complexed with 2-aminoacetophenone.

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	4CO9	PDB ENTRY 4CO9

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1			293	100 MM TRIS-HCL PH 8.5, 140 MM MGCL2 AND 30 % (W/V) PEG 4000. 293 K. PROTEIN WAS PREVIOUSLY INCUBATED WITH 5 % (V/V) 2-AMINOACETOPHENONE.

Crystal Properties
Matthews coefficient	Solvent content
2.23	44.88

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 73.695	α = 90
b = 66.561	β = 90.24
c = 84.061	γ = 90

Symmetry
Space Group	P 1 21 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	PIXEL	DECTRIS PILATUS 6M	MIRRORS	2013-09-22	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	DIAMOND BEAMLINE I03		Diamond	I03

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	2.25	42.64	98.1	0.16	4.8	2.7		38046

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	2.25	2.32	97.7		0.55	2.2	2.7

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	PDB ENTRY 4CO9	2.24	42.64	36106	1916	96.69	0.18576	0.1837	0.19	0.2241	0.22	RANDOM	20.693

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]
7.17		6.27	5.74		-12.91

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.668
r_dihedral_angle_3_deg	14.365
r_dihedral_angle_4_deg	12.657
r_dihedral_angle_1_deg	6.727
r_scangle_it	3.963
r_mcangle_it	3.09
r_scbond_it	2.495
r_mcbond_it	2.008
r_mcbond_other	2.006
r_angle_refined_deg	1.684
r_angle_other_deg	1.343
r_symmetry_hbond_refined	0.509
r_symmetry_vdw_refined	0.312
r_nbd_refined	0.238
r_metal_ion_refined	0.205
r_symmetry_vdw_other	0.198
r_nbd_other	0.197
r_nbtor_refined	0.176
r_xyhbond_nbd_refined	0.163
r_symmetry_hbond_other	0.145
r_xyhbond_nbd_other	0.132
r_chiral_restr	0.1
r_nbtor_other	0.088
r_bond_refined_d	0.017
r_gen_planes_refined	0.012
r_bond_other_d	0.009
r_gen_planes_other	0.008
r_metal_ion_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6467
Nucleic Acid Atoms
Solvent Atoms	412
Heterogen Atoms	21

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing