2GNP | pdb_00002gnp

Structural Genomics, the crystal structure of a transcriptional regulator from Streptococcus pneumoniae TIGR4

X-RAY DIFFRACTION

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Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	6.5	298	0.1M Sodium Acetate, 0.1M MES, 30% PEG 400, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Properties
Matthews coefficient	Solvent content
2.08	40.79

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 107.044	α = 90
b = 34.451	β = 101.53
c = 71.627	γ = 90

Symmetry
Space Group	C 1 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	ADSC QUANTUM 315	mirrors	2006-03-16	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 19-ID	0.97907	APS	19-ID

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	1.65	30.4	97.7	0.078	30.39	4.6	30578	30578	1	1	20.81

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	1.65	1.71	98.7		0.528	2.57	4	3047

Refinement

Statistics
Diffraction ID	Structure Solution Method	Cross Validation method	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 (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	SAD	THROUGHOUT	1.65	30.4	29033	29033	1537	97.62	0.1956	0.1956	0.19335	0.1923	0.23677	0.2335	RANDOM	21.637

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]

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	39.206
r_dihedral_angle_4_deg	20.26
r_dihedral_angle_3_deg	14.818
r_dihedral_angle_1_deg	5.917
r_scangle_it	4.84
r_scbond_it	3.319
r_mcangle_it	1.95
r_angle_refined_deg	1.782
r_mcbond_it	1.268
r_symmetry_hbond_refined	0.383
r_nbtor_refined	0.308
r_symmetry_vdw_refined	0.288
r_nbd_refined	0.239
r_xyhbond_nbd_refined	0.194
r_chiral_restr	0.142
r_bond_refined_d	0.02
r_gen_planes_refined	0.008

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	2098
Nucleic Acid Atoms
Solvent Atoms	282
Heterogen Atoms	7

Software

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