IL_4D67_128

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

CUCAGUAC*GGAACCG

Length

15 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_128 not in the Motif Atlas

Geometric match to IL_5TBW_116

Geometric discrepancy: 0.2611

The information below is about IL_5TBW_116

Detailed Annotation

8x7 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_04346.8

Basepair signature

cWW-cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

15

Unit IDs

4D67|1|2|C|4556
4D67|1|2|U|4557
4D67|1|2|C|4558
4D67|1|2|A|4559
4D67|1|2|G|4560
4D67|1|2|U|4561
4D67|1|2|A|4562
4D67|1|2|C|4563
*
4D67|1|2|G|4568
4D67|1|2|G|4569
4D67|1|2|A|4570
4D67|1|2|A|4571
4D67|1|2|C|4572
4D67|1|2|C|4573
4D67|1|2|G|4574

Current chains

Chain 2

28S RRNA

Nearby chains

Chain B

60S RIBOSOMAL PROTEIN L3

Chain H

60S RIBOSOMAL PROTEIN L9

Chain m

UBIQUITIN-60S RIBOSOMAL PROTEIN L40