Caltech Tomography Archive
Published 2015 | Version v1
Dataset Open

Agrobacter

Yao, Qing1
  • 1. ROR icon California Institute of Technology

Description

Mutant Agro cells, delVirB (whole of the VirB system deleted). Grown on induction plate pH5.8 in exactly similar way as the AD1484 strain.

Files

keyimg_qya2015-12-25-22.jpg
Files (16.7 MB)
Name Size
keymov_qya2015-12-25-22.mp4
md5:c45f7b866c3ba9ec083d838f2c618dbb
15.6 MB Download
keyimg_qya2015-12-25-22.jpg
md5:bb291ace9fa9335ea4ba432723e8e5db
1.1 MB Preview Download

Technical info

Tilt Series Date: 2015-12-25

Data Taken By: Qing Yao

Species / Specimen: Agrobacterium tumefaciens

Strain:

Tilt Series Settings: Single Axis, tilt range: (-60.0°, 60.0°), step: 1.0°, constant angular increment, dosage: 195.0 eV/Ų, defocus: -10.0 μm, magnification: 22500x.

Microscope: Caltech Polara

Acquisition Software: UCSFTomo

Upload Method: pipeline

Processing Software Used: UCSFtomo

Collaborators and Roles: Strain constructed by Anath Das. Data collected and processed by Debnath Ghosal using Caltech tomography pipeline.

Purification / Growth Conditions / Treatment: Grow at 19C for 4 days on induction plate. Add 400 ul of induction media to one of the induction plates (containing lawn of Agrobacterium AD348_delVirB) and wash the plate by gently rolling the liquid. Add gold to this: 1ul of gold to 4 ul of cells, freeze.

Sample Preparation: Vitrobot (MK iv) settings: 100% humidity, 4µl sample, Blot force 6, blot time 3 sec. Wait time 0 sec. Drain time 1 sec. Ethane/propane mix. Grid: Quantifoil Cu 2/2 200.

External Files

Files available via S3 at https://sdsc.osn.xsede.org/ini210004tommorrell/tomography_archive/qya2015-12-25-22/3dimage_71862/

agrobacter_20007_full.rec, Reconstruction (Pixel Size 1.92 nm), 445.4 MB Download

agrobacter_20007.mrc, Tilt Series (Pixel Size 0.48 nm), 3.4 GB Download

Additional details

Identifiers Funding Dates
Created:
May 31, 2023
Modified:
August 29, 2025