 |
PDBsum entry 2avy
|
|
|
|
|
 |
Contents |
 |
|
|
|
|
|
|
|
|
|
|
|
206 a.a.
|
|
|
|
|
|
|
|
|
|
|
205 a.a.
|
|
|
|
|
|
|
|
|
|
|
150 a.a.
|
|
|
|
|
|
|
|
|
|
|
100 a.a.
|
|
|
|
|
|
|
|
|
|
|
150 a.a.
|
|
|
|
|
|
|
|
|
|
|
129 a.a.
|
|
|
|
|
|
|
|
|
|
|
127 a.a.
|
|
|
|
|
|
|
|
|
|
|
98 a.a.
|
|
|
|
|
|
|
|
|
|
|
117 a.a.
|
|
|
|
|
|
|
|
|
|
|
123 a.a.
|
|
|
|
|
|
|
|
|
|
|
114 a.a.
|
|
|
|
|
|
|
|
|
|
|
96 a.a.
|
|
|
|
|
|
|
|
|
|
|
88 a.a.
|
|
|
|
|
|
|
|
|
|
|
82 a.a.
|
|
|
|
|
|
|
|
|
|
|
80 a.a.
|
|
|
|
|
|
|
|
|
|
|
55 a.a.
|
|
|
|
|
|
|
|
|
|
|
79 a.a.
|
|
|
|
|
|
|
|
|
|
|
85 a.a.
|
|
|
|
|
|
|
|
|
|
|
218 a.a.
|
|
|
|
|
|
|
|
|
|
|
51 a.a.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
References listed in PDB file
|
|
|
Key reference
|
|
|
Title
|
|
Structures of the bacterial ribosome at 3.5 a resolution.
|
|
|
Authors
|
|
B.S.Schuwirth,
M.A.Borovinskaya,
C.W.Hau,
W.Zhang,
A.Vila-Sanjurjo,
J.M.Holton,
J.H.Cate.
|
|
|
Ref.
|
|
Science, 2005,
310,
827-834.
[DOI no: ]
|
|
|
PubMed id
|
|
|
|
|
|
Abstract
|
|
|
We describe two structures of the intact bacterial ribosome from Escherichia
coli determined to a resolution of 3.5 angstroms by x-ray crystallography. These
structures provide a detailed view of the interface between the small and large
ribosomal subunits and the conformation of the peptidyl transferase center in
the context of the intact ribosome. Differences between the two ribosomes reveal
a high degree of flexibility between the head and the rest of the small subunit.
Swiveling of the head of the small subunit observed in the present structures,
coupled to the ratchet-like motion of the two subunits observed previously,
suggests a mechanism for the final movements of messenger RNA (mRNA) and
transfer RNAs (tRNAs) during translocation.
|
|
|
|
|
|
|
|
Figure 6.
Fig. 6. Molecular interactions in the intersubunit bridges. (A)
Contact between S13 and L5 in ribosome I. (B) Contact between
S13 and L5 in ribosome II. Only the C  traces for the
proteins are shown, because protein side chains are not clear in
the electron density of either ribosome. Residues that become
inaccessible to solvent (44) are indicated in orange for L5 and
in yellow for S13 and S19. The direction of view is indicated in
the center. (C) Molecular interactions in bridge B3. (D)
Molecular interactions in bridge B7a. (E) Molecular interactions
in bridge B6. Waters modeled at the interface are shown as red
spheres inside the water-accessible volume, green mesh. (F)
Close approach of phosphates at the subunit interface near
bridge B2c. Distances (in angstroms) between phosphate oxygens
are marked.
|
|
Figure 7.
Fig. 7. Intersubunit bridges B2a and B4. (A) Minor-groove
interactions between H69 and h44 and h45, broken down by region.
Atoms within hydrogen-bonding distance, as mentioned in the
text, are connected by dashed lines. (B) Molecular interactions
in bridge B4. Protein S15 in the 30S subunit is in blue, with
relevant side chains in green. The interaction is viewed from
the left side of Fig. 5A (left) and from the right side of Fig.
5A (right). Electron density is visible for the side chain of
Arg88 (R88) in ribosome II, but not in ribosome I. Other amino
acid abbreviations: I, Ile; L, Leu; V, Val; A, Ala; Q, Gln.
|
|
|
|
|
|
The above figures are
reprinted
by permission from the AAAs:
Science
(2005,
310,
827-834)
copyright 2005.
|
|
|
|
|
|
|
