2HJ6

Reaction centre from Rhodobacter sphaeroides strain R-26.1 complexed with dibrominated phosphatidylserine

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	Other		Unpublished structure of reaction centre at 1.95A resolution

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8	289	Potassium phosphate, LDAO, 1,2,3-heptanetriol, 1,2,3-hexanetriol, dioxane, NaCl, Tris-HCl, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 16.0K

Crystal Properties
Matthews coefficient	Solvent content
5.47	77.51

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 139.355	α = 90
b = 139.355	β = 90
c = 183.217	γ = 120

Symmetry
Space Group	P 31 2 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 225 mm CCD	mirrors	2005-05-20	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SRS BEAMLINE PX10.1	0.92	SRS	PX10.1

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	3	39.29	99.7	0.085	15.3	6.9		41533			81.1

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	3	3.16	100		0.575	3.1	7	6031

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	Starting model	Resolution (High)	Resolution (Low)	Number Reflections (All)	Number Reflections (Observed)	Number Reflections (R-Free)	Percent Reflections (Observed)	R-Factor (All)	R-Factor (Observed)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	Unpublished structure of reaction centre at 1.95A resolution	3	39.29	41494	39411	2083	99.43	0.17683	0.17683	0.17407	0.22719	RANDOM	57.076

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]
-0.33	-0.17		-0.33		0.5

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	34.813
r_dihedral_angle_3_deg	17.15
r_dihedral_angle_4_deg	16.249
r_dihedral_angle_1_deg	6.5
r_scangle_it	2.788
r_angle_refined_deg	1.938
r_scbond_it	1.799
r_angle_other_deg	1.171
r_mcangle_it	1.118
r_mcbond_it	0.588
Cruickshank estimated coordinate error	0.502
r_symmetry_hbond_refined	0.336
r_nbd_refined	0.234
r_symmetry_vdw_other	0.232
r_symmetry_vdw_refined	0.222
r_nbtor_refined	0.207
r_nbd_other	0.205
Maximum Likelihood estimated coordinate error	0.192
r_xyhbond_nbd_refined	0.184
r_xyhbond_nbd_other	0.129
r_mcbond_other	0.108
r_metal_ion_refined	0.098
r_chiral_restr	0.093
r_nbtor_other	0.093
r_bond_refined_d	0.018
r_gen_planes_refined	0.008
r_bond_other_d	0.002
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6476
Nucleic Acid Atoms
Solvent Atoms	351
Heterogen Atoms	787

Software

Software
Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
AMoRE	phasing