IL_4D67_011

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

GUGAAAC*GUGGAUC

Length

14 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_4D67_011 not in the Motif Atlas

Homologous match to IL_5TBW_015

Geometric discrepancy: 0.1791

The information below is about IL_5TBW_015

Detailed Annotation

Triple sheared with non-canonical cWW

Broad Annotation

Triple sheared

Motif group

IL_66414.7

Basepair signature

cWW-L-R-tSH-tSH-tHS-cWW-cWW

Number of instances in this motif group

7

Unit IDs

4D67|1|2|G|406
4D67|1|2|U|407
4D67|1|2|G|408
4D67|1|2|A|409
4D67|1|2|A|410
4D67|1|2|A|411
4D67|1|2|C|412
*
4D67|1|3|G|13
4D67|1|3|U|14
4D67|1|3|G|15
4D67|1|3|G|16
4D67|1|3|A|17
4D67|1|3|U|18
4D67|1|3|C|19

Current chains

Chain 2

28S RRNA

Chain 3

5.8S RRNA

Nearby chains

Chain P

60S RIBOSOMAL PROTEIN L17

Chain e

60S RIBOSOMAL PROTEIN L32