2RET | pdb_00002ret

The crystal structure of a binary complex of two pseudopilins: EpsI and EpsJ from the Type 2 Secretion System of Vibrio vulnificus

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	7.8	298	10-15% PEG 4000 and 0.1 M MnCl2, protein buffer: 20 mM Tris-Hcl (pH 7.8), 250 mM NaCl, 1 mM EDTA, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.61	52.86

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 63.288	α = 65
b = 79.145	β = 69.19
c = 82.079	γ = 69.49

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	MARMOSAIC 325 mm CCD	Flat collimating mirror, double crystal monochromator, toroid focusing mirror	2007-01-29	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL9-2	0.97903	SSRL	BL9-2

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	2.2	50	97.5	0.085	10	3.8		63933

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	2.28	91.8		0.501		2.7	6027

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	2.21	40.39	63270	3205	96.26	0.188	0.185	0.19	0.245	0.25	RANDOM	16.943

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]
0.34	0.5	-0.28	0.02	-0.16	-0.39

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	32.982
r_dihedral_angle_4_deg	18.582
r_dihedral_angle_3_deg	17.611
r_dihedral_angle_1_deg	6.759
r_scangle_it	3.693
r_scbond_it	2.537
r_angle_refined_deg	1.457
r_mcangle_it	1.273
r_angle_other_deg	0.922
r_mcbond_it	0.671
r_symmetry_vdw_refined	0.357
r_symmetry_metal_ion_refined	0.254
r_metal_ion_refined	0.251
r_symmetry_vdw_other	0.245
r_symmetry_hbond_refined	0.23
r_nbd_other	0.203
r_xyhbond_nbd_refined	0.196
r_nbd_refined	0.187
r_nbtor_refined	0.174
r_mcbond_other	0.161
r_xyhbond_nbd_other	0.087
r_nbtor_other	0.086
r_chiral_restr	0.085
r_bond_refined_d	0.015
r_gen_planes_refined	0.005
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	7597
Nucleic Acid Atoms
Solvent Atoms	611
Heterogen Atoms	4

Software

Software
Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction