Experiment: 4A0R

Structure of bifunctional DAPA aminotransferase-DTB synthetase from Arabidopsis thaliana bound to dethiobiotin (DTB).

X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		NATIVE DETHIOBIOTIN SYNTHETASE- DIAMINOPELARGONIC ACID AMINOTRANSFERASE FROM ARABIDOPSIS THALIANA

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1				0.2 M AMMONIUM TARTRATE PH 6.2, 15 % PEG 3350.

Crystal Properties
Matthews coefficient	Solvent content
1.91	35.8

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 246.67	α = 90
b = 76.63	β = 108.02
c = 79.84	γ = 90

Symmetry
Space Group	C 1 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	CCD	ADSC QUANTUM 210			M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-1		ESRF	ID14-1

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	2.68	40.44	99.7	0.15	9.95	4.2		40026		-3	34.68

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	2.68	2.75	99.8		0.76	1.83	4.2

Refinement

Statistics
Diffraction ID	Structure Solution 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)	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	NATIVE DETHIOBIOTIN SYNTHETASE- DIAMINOPELARGONIC ACID AMINOTRANSFERASE FROM ARABIDOPSIS THALIANA	2.68	40.436	40012	2006	99.82	0.1881	0.1844	0.1802	0.259	0.2549	34.9

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]
-2.9779		-3.018	3.5817		-0.6038

RMS Deviations
Key	Refinement Restraint Deviation
f_dihedral_angle_d	15.232
f_angle_d	1.253
f_chiral_restr	0.077
f_bond_d	0.009
f_plane_restr	0.006

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	11470
Nucleic Acid Atoms
Solvent Atoms	121
Heterogen Atoms	80

Software

Software
Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing