3FFE | pdb_00003ffe

Structure of Achromobactin Synthetase Protein D, (AcsD)

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8.5	293	0.1M Tris-HCl, pH8.5, 1.0M sodium tartrate, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Properties
Matthews coefficient	Solvent content
2.07	40.7

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 80.328	α = 90
b = 95.729	β = 90
c = 160.52	γ = 90

Symmetry
Space Group	P 21 21 21

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	MARMOSAIC 225 mm CCD	mirrors	2006-09-12	M	SINGLE WAVELENGTH
2	1	x-ray	100	CCD	ADSC QUANTUM 315	torodial focusing mirror	2006-07-25	M	SINGLE WAVELENGTH
1,2	1

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE BM14	0.976	ESRF	BM14
2	SYNCHROTRON	ESRF BEAMLINE ID14-4	0.979	ESRF	ID14-4

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	2.25	50	94.4	0.098	11.5	3		56200	2	1

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	2.25	2.38	91.5		0.402	3.2	3

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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	SAD	THROUGHOUT	2.25	28.72	55464	2970	98.25	0.18907	0.18634	0.19	0.24055	0.24	RANDOM	18.294

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]
-0.05			0.06

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.046
r_dihedral_angle_4_deg	16.045
r_dihedral_angle_3_deg	13.661
r_dihedral_angle_1_deg	5.876
r_scangle_it	1.856
r_scbond_it	1.217
r_angle_refined_deg	1.093
r_angle_other_deg	0.843
r_mcangle_it	0.728
r_mcbond_it	0.673
r_symmetry_vdw_other	0.285
r_symmetry_vdw_refined	0.267
r_nbd_other	0.196
r_nbd_refined	0.195
r_nbtor_refined	0.172
r_xyhbond_nbd_refined	0.142
r_symmetry_hbond_refined	0.14
r_mcbond_other	0.089
r_nbtor_other	0.084
r_chiral_restr	0.058
r_xyhbond_nbd_other	0.02
r_bond_refined_d	0.009
r_gen_planes_refined	0.003
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	9205
Nucleic Acid Atoms
Solvent Atoms	501
Heterogen Atoms

Software

Software
Software Name	Purpose
XDS	data scaling
SHELXS	phasing
REFMAC	refinement
XDS	data reduction
SCALA	data scaling