2VEA | pdb_00002vea

The complete sensory module of the cyanobacterial phytochrome Cph1 in the Pr-state.

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		6.7		TETRAGONAL CRYSTALS OF THE CPH1 PR STATE WERE GROWN IN 96-WELL CRYSTALLIZATION PLATES USING DROPS COMPRISING 500 NL 10 MG/ML CPH1-DELTA2 IN 2.5 MM TRIS/HCL PH 7.8, 15 MM NACL PLUS 500 NL RESERVOIR SOLUTION (2.1 M SODIUM ACETATE, PH 6.7).

Crystal Properties
Matthews coefficient	Solvent content
3.2	55.5

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 77.18	α = 90
b = 77.18	β = 90
c = 249	γ = 90

Symmetry
Space Group	P 43 21 2

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	ADSC CCD	MIRRORS	2007-07-13	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	ESRF BEAMLINE ID14-4		ESRF	ID14-4

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	25	67.2	0.05	23	7		26939		-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	2.25	6.7		0.36	3.5

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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	NONE	2.21	24.68	25188	1062	68.1	0.245	0.244	0.3257	0.271	0.3174	RANDOM	65.47

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]
1.01			1.01		-2.02

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.297
r_dihedral_angle_4_deg	18.74
r_dihedral_angle_3_deg	16.791
r_dihedral_angle_1_deg	6.427
r_angle_refined_deg	1.301
r_angle_other_deg	0.859
r_scangle_it	0.758
r_scbond_it	0.491
r_mcangle_it	0.42
r_mcbond_it	0.255
r_nbd_refined	0.189
r_nbd_other	0.182
r_symmetry_vdw_other	0.176
r_nbtor_refined	0.172
r_symmetry_vdw_refined	0.143
r_symmetry_hbond_refined	0.13
r_xyhbond_nbd_refined	0.128
r_nbtor_other	0.083
r_chiral_restr	0.062
r_bond_refined_d	0.007
r_gen_planes_refined	0.003
r_gen_planes_other	0.003
r_bond_other_d	0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	3934
Nucleic Acid Atoms
Solvent Atoms	29
Heterogen Atoms	43

Software

Software
Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
SHARP	phasing