2W03

Co-complex Structure of Achromobactin Synthetase Protein D (AcsD) with adenosine, sulfate and citrate from Pectobacterium Chrysanthemi

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
other		APO STRUCTURE OF ACSD

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, HANGING DROP	6.5		29% PEG8000, 200 MM (NH4)2SO4, 10 MM SODIUM CITRATE, 5 MM ADENOSINE, 100 MM NACAC PH 6.5 ACSD CONCENTRATION: 9 MG/ML, 3UL PROTEIN AND EQUAL AMOUNTS OF PRECIPITANT USED FOR HANGING DROP METHOD

Crystal Properties
Matthews coefficient	Solvent content
2.6	53

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 57.65	α = 95.43
b = 69.14	β = 101.45
c = 94.19	γ = 95.06

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	100	CCD	MARRESEARCH	PT COATED MIRRORS IN A KIRKPATRICK-BAEZ (KB) GEOMETRY	2007-11-09	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID23-2		ESRF	ID23-2

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	2.95	45.9	98.2	0.14	6.2	2		29165		2

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	2.95	3.11	98.5		0.44	1.9	2

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	APO STRUCTURE OF ACSD	2.95	91.67	27691	1474	98.2	0.205	0.202	0.21	0.267	0.28	RANDOM	20.15

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]
1.71	-3.16	-3.05	0.22	0.04	-3.68

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.301
r_dihedral_angle_4_deg	19.978
r_dihedral_angle_3_deg	19.351
r_dihedral_angle_1_deg	7.947
r_scangle_it	2.561
r_angle_refined_deg	1.747
r_scbond_it	1.539
r_mcangle_it	1.031
r_mcbond_it	0.568
r_nbtor_refined	0.327
r_symmetry_vdw_refined	0.288
r_nbd_refined	0.264
r_symmetry_hbond_refined	0.257
r_xyhbond_nbd_refined	0.185
r_chiral_restr	0.157
r_bond_refined_d	0.016
r_gen_planes_refined	0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_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	9227
Nucleic Acid Atoms
Solvent Atoms	73
Heterogen Atoms	61

Software

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