3D structure

PDB id
4D5Y (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state
Experimental method
ELECTRON MICROSCOPY
Resolution
9 Å

Loop

Sequence
GGAG*CGCCGGUGAAAUAC
Length
18 nucleotides
Bulged bases
None detected
QA status
Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.
R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.
R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.
R3DMCS Rfam
IL_4D5Y_109 not in the Motif Atlas
Geometric match to IL_1MZP_003
Geometric discrepancy: 0.2267
The information below is about IL_1MZP_003
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
IL_75283.2
Basepair signature
cWW-tSS-L-R-L-tHS-L-cWW-L-tWH-tWH-L-L-R
Number of instances in this motif group
3

Unit IDs

4D5Y|1|2|G|3939
4D5Y|1|2|G|3940
4D5Y|1|2|A|3941
4D5Y|1|2|G|3942
*
4D5Y|1|2|C|4006
4D5Y|1|2|G|4007
4D5Y|1|2|C|4008
4D5Y|1|2|C|4009
4D5Y|1|2|G|4010
4D5Y|1|2|G|4011
4D5Y|1|2|U|4012
4D5Y|1|2|G|4013
4D5Y|1|2|A|4014
4D5Y|1|2|A|4015
4D5Y|1|2|A|4016
4D5Y|1|2|U|4017
4D5Y|1|2|A|4018
4D5Y|1|2|C|4019

Current chains

Chain 2
28S Ribosomal RNA

Nearby chains

Chain u
60S RIBOSOMAL PROTEIN UL1

Coloring options:


Copyright 2025 BGSU RNA group. Page generated in 0.1249 s