3D structure

PDB id
4D67 (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
GUGUGAGGC
Length
9 nucleotides
Bulged bases
4D67|1|2|G|229, 4D67|1|2|U|230, 4D67|1|2|G|231
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
HL_4D67_007 not in the Motif Atlas
Homologous match to HL_8C3A_007
Geometric discrepancy: 0.1838
The information below is about HL_8C3A_007
Detailed Annotation
T-loop with unstacked turn
Broad Annotation
T-loop
Motif group
HL_08002.12
Basepair signature
cWW-cWW-F-tWH
Number of instances in this motif group
16

Unit IDs

4D67|1|2|G|227
4D67|1|2|U|228
4D67|1|2|G|229
4D67|1|2|U|230
4D67|1|2|G|231
4D67|1|2|A|232
4D67|1|2|G|233
4D67|1|2|G|234
4D67|1|2|C|235

Current chains

Chain 2
28S RRNA

Nearby chains

Chain 3
5.8S ribosomal RNA; 5.8S rRNA
Chain C
60S RIBOSOMAL PROTEIN L4
Chain Y
60S RIBOSOMAL PROTEIN L26

Coloring options:


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