6UU6

E. coli sigma-S transcription initiation complex with a 4-nt RNA and a UTP ("Old" crystal soaked with UTP, ddCTP, and dinucleotide ApG for 30 minutes)

X-RAY DIFFRACTION

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Starting Model(s)

Initial Refinement Model(s)
Type	Source	Accession Code	Details
experimental model	PDB	5IPL

Crystallization

Crystalization Experiments
ID	Method	pH	Temperature	Details
1	VAPOR DIFFUSION, SITTING DROP	8	295	PEG3350, sodium chloride, HEPES

Crystal Properties
Matthews coefficient	Solvent content
2.69	54.2

Crystal Data

Unit Cell
Length ( Å )	Angle ( ˚ )
a = 132.395	α = 90
b = 154.105	β = 90
c = 232.152	γ = 90

Symmetry
Space Group	P 21 21 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	PIXEL	DECTRIS PILATUS 6M-F		2017-07-06	M	SINGLE WAVELENGTH

Radiation Source
ID #	Source	Type	Wavelength List	Synchrotron Site	Beamline
1	SYNCHROTRON	APS BEAMLINE 24-ID-E	0.97918	APS	24-ID-E

Data Collection

Overall
ID #	Resolution (High)	Resolution (Low)	Percent Possible (Observed)	CC (Half)	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	4.2	49.1	99.1	0.999	7.53	6.8		35121

Highest Resolution Shell
ID #	Resolution (High)	Resolution (Low)	Percent Possible (All)	Percent Possible (Observed)	CC (Half)	Mean I Over Sigma (Observed)	Redundancy	Number Unique Reflections (All)
1	4.2	4.45	95.2		0.114	0.46	6.8

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 (All)	R-Work	R-Free	R-Free Selection Details	Mean Isotropic B
X-RAY DIFFRACTION	MOLECULAR REPLACEMENT	FREE R-VALUE	5IPL	4.201	49.077	34963	1678	98.872	0.345	0.3425	0.389	0	251.227

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]
0.154			-0.06		-0.094

RMS Deviations
Key	Refinement Restraint Deviation
r_dihedral_angle_2_deg	28.681
r_lrange_it	23.899
r_lrange_other	23.899
r_dihedral_angle_3_deg	19.54
r_dihedral_angle_4_deg	17.193
r_mcangle_it	10.399
r_mcangle_other	10.398
r_scangle_it	8.089
r_scangle_other	8.089
r_dihedral_angle_1_deg	6.714
r_mcbond_it	5.841
r_mcbond_other	5.841
r_scbond_it	4.35
r_scbond_other	4.35
r_angle_refined_deg	1.45
r_angle_other_deg	1.017
r_nbd_other	0.401
r_symmetry_xyhbond_nbd_refined	0.386
r_symmetry_nbd_refined	0.35
r_xyhbond_nbd_refined	0.268
r_symmetry_nbd_other	0.239
r_nbd_refined	0.228
r_metal_ion_refined	0.206
r_symmetry_xyhbond_nbd_other	0.16
r_nbtor_refined	0.157
r_ncsr_local_group_1	0.133
r_chiral_restr	0.067
r_gen_planes_refined	0.038
r_gen_planes_other	0.035
r_bond_refined_d	0.006
r_bond_other_d	0.001

Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms	Number
Protein Atoms	27579
Nucleic Acid Atoms	1396
Solvent Atoms
Heterogen Atoms	51

Software

Software
Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing