2P84 | pdb_00002p84

Crystal structure of ORF041 from Bacteriophage 37

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1		7.5	295	0.1M HEPES, pH 7.5, 1.4 M tri-sodium citrate, VAPOR DIFFUSION, SITTING DROP, temperature 295K, pH 7.50

Crystal Properties
Matthews coefficient	Solvent content
2.44	45.01

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 49.47	α = 90
b = 109.37	β = 90
c = 57.19	γ = 90

Symmetry
Space Group	C 2 2 21

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	MAR CCD 165 mm	SGX-CAT	2007-03-16	M	SINGLE WAVELENGTH

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

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	R Merge I (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	1.8	24.668	98.5	0.079	0.079	11.2	13.6		16818

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	R Merge I (Observed)	R-Sym I (Observed)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	1.81	1.92	100		0.33	0.33	1	14

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	1.8	18.88	13993	733		0.212	0.208	0.22	0.273	0.28	RANDOM	28.38

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]
-0.06			0.09		-0.03

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	36.572
r_dihedral_angle_3_deg	16.717
r_dihedral_angle_4_deg	13.949
r_dihedral_angle_1_deg	9.347
r_scangle_it	4.208
r_scbond_it	3.058
r_mcangle_it	2.202
r_mcbond_it	1.872
r_angle_refined_deg	1.816
r_angle_other_deg	1.278
r_mcbond_other	0.303
r_symmetry_vdw_other	0.265
r_nbd_refined	0.235
r_symmetry_vdw_refined	0.229
r_chiral_restr	0.223
r_xyhbond_nbd_refined	0.216
r_nbd_other	0.214
r_symmetry_hbond_refined	0.214
r_nbtor_refined	0.19
r_nbtor_other	0.091
r_bond_refined_d	0.021
r_gen_planes_refined	0.008
r_bond_other_d	0.002
r_gen_planes_other	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_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1118
Nucleic Acid Atoms
Solvent Atoms	102
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
SHELX	refinement
CCP4	refinement
PDB_EXTRACT	data extraction
MOSFLM	data reduction
CCP4	data scaling
SHELXS	phasing