3JTY

Crystal structure of a BenF-like porin from Pseudomonas fluorescens Pf-5

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	2QTK	Poly-Alanine model of the PDB code 2QTK

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP		294	100mM Citric acid, 21% PEG 3350, 10% w/v ANAPOE-X-114 from the detergent screen, VAPOR DIFFUSION, SITTING DROP, temperature 294K

Crystal Properties
Matthews coefficient	Solvent content
3.04	59.59

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 62.103	α = 90
b = 210.624	β = 97.76
c = 84.066	γ = 90

Symmetry
Space Group	P 1 21 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	RAYONIX MX225HE		2009-07-31	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 31-ID	0.97929	APS	31-ID

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Sym 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	2.58	53.68	100	0.14	6.1	3.9		67053			42.14

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
	2.58	2.72	100		0.527	2.7	3.8	9774

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	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	Poly-Alanine model of the PDB code 2QTK	2.58	35.11	66977	3390	100	0.222	0.22	0.275	RANDOM	41.96

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]
0.04		-0.02	-0.05		0.01

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	37.064
r_dihedral_angle_4_deg	15.013
r_dihedral_angle_3_deg	14.559
r_dihedral_angle_1_deg	7.22
r_scangle_it	2.202
r_angle_refined_deg	1.6
r_scbond_it	1.551
r_mcangle_it	1.26
r_angle_other_deg	0.95
r_mcbond_it	0.737
r_symmetry_vdw_other	0.247
r_nbd_other	0.206
r_nbd_refined	0.191
r_nbtor_refined	0.184
r_mcbond_other	0.162
r_xyhbond_nbd_refined	0.14
r_symmetry_vdw_refined	0.118
r_chiral_restr	0.094
r_symmetry_hbond_refined	0.094
r_nbtor_other	0.087
r_bond_refined_d	0.017
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	11859
Nucleic Acid Atoms
Solvent Atoms	25
Heterogen Atoms	32

Software

Software
Software Name	Purpose
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
SCALA	data scaling