EMD-11972 Experiments and Validation

Overall map of a transcribing RNA polymerase II-U1 snRNP complex with 145-nt RNA

Single particle reconstruction
Overview of EMD-11972
Sample name: The transcribing RNA polymerase II-U1 snRNP complex with 145-nt RNA
Organisms: Sus scrofa domesticus, synthetic construct, Homo sapiens, Human
Fitted atomic model: 7b0y

Map parameters

Recommended contour level: 3.80 (author)
Number of grid points: 400 × 400 × 400
Voxel size: 1.05 × 1.05 × 1.05 Å
Minimum density: -24.011
Maximum density: 41.496
Average density: 0.00
Standard deviation: 1.00

Sample information

Sample name: The transcribing RNA polymerase II-U1 snRNP complex with 145-nt RNA
Ligands: ZINC ION, MAGNESIUM ION
Nucleic acids: Non-template DNA, 145-nt RNA, Template DNA, U1 snRNA
Proteins: The transcribing RNA polymerase II-U1 snRNP complex with 145-nt RNA, RNA polymerase II, Nucleic acids, U1 snRNP, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RPB12, U1 small nuclear ribonucleoprotein 70 kDa, U1 small nuclear ribonucleoprotein A, Small nuclear ribonucleoprotein Sm D2, Small nuclear ribonucleoprotein F, Small nuclear ribonucleoprotein E, Small nuclear ribonucleoprotein G, Small nuclear ribonucleoprotein Sm D3, Small nuclear ribonucleoprotein-associated protein, Small nuclear ribonucleoprotein Sm D1

Validation information

Experimental information

 

Image processing

Software: RELION
Number of particles: 61596

Fitting

Initial atomic models: 6GMH, 3PGW, 4PJO, 4PKD

Imaging

Session
Microscope model: FEI TITAN KRIOS
Electron source: FIELD EMISSION GUN
Electron dose (e/A**2): 1.01
Holder model: OTHER

Specimen

Preparation
Specimen state: particle
Vitrification
Apparatus: FEI VITROBOT MARK IV
Cryogen: ETHANE
Humidity: 100