2HHK

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

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experimental model	Other		Unpublished structure of reaction centre at 1.95A resolution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
5.49	77.59

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 139.417	α = 90
b = 139.417	β = 90
c = 183.701	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	2005-03-18	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE BM14	0.9192	ESRF	BM14

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	2.5	46.03	99.6	0.059	22.8	10.9		71485			59.6

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	2.5	2.64	99.4		0.543	4.6	11	10292

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X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	THROUGHOUT	Unpublished structure of reaction centre at 1.95A resolution	2.5	46	71469	67921	3548	99.48	0.17347	0.17347	0.17223	0.19677	RANDOM	52.449

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]
-0.71	-0.35		-0.71		1.06

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	33.518
r_dihedral_angle_4_deg	18.137
r_dihedral_angle_3_deg	14.347
r_dihedral_angle_1_deg	5.86
r_scangle_it	3.24
r_scbond_it	2.293
r_angle_refined_deg	1.762
r_angle_other_deg	1.541
r_mcangle_it	1.324
r_mcbond_it	0.728
r_symmetry_vdw_other	0.271
r_symmetry_hbond_refined	0.27
r_nbd_refined	0.221
Cruickshank estimated coordinate error	0.203
r_nbd_other	0.201
r_nbtor_refined	0.197
r_mcbond_other	0.181
r_xyhbond_nbd_refined	0.178
r_symmetry_vdw_refined	0.157
r_chiral_restr	0.108
Maximum Likelihood estimated coordinate error	0.104
r_nbtor_other	0.093
r_metal_ion_refined	0.086
r_bond_refined_d	0.019
r_gen_planes_refined	0.009
r_xyhbond_nbd_other	0.003
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	6475
Nucleic Acid Atoms
Solvent Atoms	410
Heterogen Atoms	818

Software

Software
Software Name	Purpose
REFMAC	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing