4V48

Real space refined coordinates of the 30S and 50S subunits fitted into the low resolution cryo-EM map of the initiation-like state of E. coli 70S ribosome

This is a non-PDB format compatible entry.

Summary for 4V48

• Entry DOI: 10.2210/pdb4v48/pdb
• Related: 1GIX 1GIY 1IBL 1JJ2 1LNR 1M5G
• Descriptor: 23S ribosomal RNA, 50S ribosomal protein L11, 50S ribosomal protein L13, ... (48 entities in total)
• Functional Keywords: ef-g.gtp-bound state, ratchet-like movement, real-space refinement, ribosome
• Biological source: Escherichia coli; More
• Total number of polymer chains: 48
• Total formula weight: 2126497.98

Authors

Gao, H.,Sengupta, J.,Valle, M.,Korostelev, A.,Eswar, N.,Stagg, S.M.,Van Roey, P.,Agrawal, R.K.,Harvey, S.T.,Sali, A.,Chapman, M.S.,Frank, J. (deposition date: 2003-05-06, release date: 2014-07-09, Last modification date: 2024-02-28)

Primary citation

Gao, H.,Sengupta, J.,Valle, M.,Korostelev, A.,Eswar, N.,Stagg, S.M.,Van Roey, P.,Agrawal, R.K.,Harvey, S.T.,Sali, A.,Chapman, M.S.,Frank, J.
Study of the structural dynamics of the E. coli 70S ribosome using real space refinement
Cell(Cambridge,Mass.), 113:789-801, 2003

PubMed Abstract: Cryo-EM density maps showing the 70S ribosome of E. coli in two different functional states related by a ratchet-like motion were analyzed using real-space refinement. Comparison of the two resulting atomic models shows that the ribosome changes from a compact structure to a looser one, coupled with the rearrangement of many of the proteins. Furthermore, in contrast to the unchanged inter-subunit bridges formed wholly by RNA, the bridges involving proteins undergo large conformational changes following the ratchet-like motion, suggesting an important role of ribosomal proteins in facilitating the dynamics of translation.

PubMed: 12809609
DOI: 10.1016/S0092-8674(03)00427-6

Experimental method

ELECTRON MICROSCOPY (11.5 Å)