2A6B | pdb_00002a6b

Crystal structure of a putative transcriptional regulator of the tena family (spr0628) from streptococcus pneumoniae r6 at 1.70 A resolution

X-RAY DIFFRACTION

---

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION,SITTING DROP,NANODROP		273	o.2M LiCl, 20.0% PEG-3350, No Buffer pH 6.7, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 273K
2	VAPOR DIFFUSION,SITTING DROP,NANODROP		273	0.2M NH4OAc, 30.0% PEG-4000, 0.1M Citrate pH 5.6, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 273K

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 119.908	α = 90
b = 119.908	β = 90
c = 47.105	γ = 90

Symmetry
Space Group	P 4 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	MARMOSAIC 325 mm CCD		2005-06-01	M	SINGLE WAVELENGTH
2	1	x-ray	100	CCD	ADSC QUANTUM 4		2005-05-05	M	MAD

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	SSRL BEAMLINE BL9-2	1.00000	SSRL	BL9-2
2	SYNCHROTRON	SSRL BEAMLINE BL1-5	0.918381, 0.978455, 0.978964, 1.033150	SSRL	BL1-5

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
1,2	1.7	29.98	100	0.089	0.089	4.4	9.4		38398

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)
1,2	1.7	1.74		100	0.513	0.513	1.3	9.6

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 (All)	R-Work (Depositor)	R-Work (DCC)	R-Free (Depositor)	R-Free (DCC)	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MAD	THROUGHOUT	1.7	29.98	36426	1937	99.98	0.156	0.155	0.17	0.175	0.19	RANDOM	20.293

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]
-1.19			-1.19		2.38

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	35.219
r_dihedral_angle_4_deg	16.404
r_dihedral_angle_3_deg	12.866
r_scangle_it	6.349
r_dihedral_angle_1_deg	4.933
r_scbond_it	4.702
r_mcangle_it	2.797
r_mcbond_it	2.192
r_angle_refined_deg	1.304
r_angle_other_deg	1.272
r_mcbond_other	0.467
r_nbd_refined	0.225
r_nbtor_refined	0.192
r_nbd_other	0.165
r_symmetry_hbond_refined	0.162
r_xyhbond_nbd_refined	0.151
r_symmetry_vdw_other	0.136
r_symmetry_vdw_refined	0.096
r_chiral_restr	0.085
r_nbtor_other	0.084
r_bond_refined_d	0.017
r_gen_planes_refined	0.006
r_bond_other_d	0.001
r_gen_planes_other	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	1758
Nucleic Acid Atoms
Solvent Atoms	240
Heterogen Atoms

Software

Software
Software Name	Purpose
REFMAC	refinement
SCALA	data scaling
PDB_EXTRACT	data extraction
MOSFLM	data reduction
CCP4	data scaling
SOLVE	phasing