2FOR | pdb_00002for

Crystal Structure of the Shigella flexneri Farnesyl Pyrophosphate Synthase Complex with an Isopentenyl Pyrophosphate

X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.5	295	0.1M HEPES sodium salt, 0.4M Sodium phosphate, 0.4M Potassium phosphate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 295K

Crystal Properties
Matthews coefficient	Solvent content
2.56	52

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 75.664	α = 90
b = 75.664	β = 90
c = 216.66	γ = 120

Symmetry
Space Group	P 61

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	Mirrors	2005-10-30	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 5ID-B	1.000000	APS	5ID-B

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	65.51	97.3	0.02	57.66	6.5	45940	45940		-3

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	2.12	87.8		0.235	7.5	5.37	6624

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 (All)	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	65.51	43786	2321	97.7	0.18369	0.18369	0.18115	0.19	0.2329	0.18	RANDOM	51.734

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]
-1.17	-0.59		-1.17		1.76

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	26.01
r_dihedral_angle_4_deg	12.288
r_dihedral_angle_3_deg	10.928
r_scangle_it	4.377
r_scbond_it	3.057
r_dihedral_angle_1_deg	2.391
r_mcangle_it	1.806
r_angle_refined_deg	1.445
r_mcbond_it	1.215
r_nbtor_refined	0.297

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	26.01
r_dihedral_angle_4_deg	12.288
r_dihedral_angle_3_deg	10.928
r_scangle_it	4.377
r_scbond_it	3.057
r_dihedral_angle_1_deg	2.391
r_mcangle_it	1.806
r_angle_refined_deg	1.445
r_mcbond_it	1.215
r_nbtor_refined	0.297
r_nbd_refined	0.208
r_symmetry_vdw_refined	0.208
r_xyhbond_nbd_refined	0.167
r_symmetry_hbond_refined	0.149
r_chiral_restr	0.102
r_bond_refined_d	0.012
r_gen_planes_refined	0.005

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	4261
Nucleic Acid Atoms
Solvent Atoms	348
Heterogen Atoms	63

Software

Software
Software Name	Purpose
XDS	data scaling
XDS	data reduction
SHARP	phasing
REFMAC	refinement

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.