HL_4D5L_039

3D structure

PDB id

4D5L (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

GAGCGAUU

Length

8 nucleotides

Bulged bases

None detected

QA status

Unknown status

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_4D5L_039 not in the Motif Atlas

Geometric match to HL_8KAL_001

Geometric discrepancy: 0.3279

The information below is about HL_8KAL_001

Detailed Annotation

GNRA with extra cWW

Broad Annotation

GNRA with extra cWW

Motif group

HL_04259.3

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

7

Unit IDs

4D5L|1|1|G|1352
4D5L|1|1|A|1353
4D5L|1|1|G|1354
4D5L|1|1|C|1355
4D5L|1|1|G|1356
4D5L|1|1|A|1357
4D5L|1|1|U|1358
4D5L|1|1|U|1359

Current chains

Chain 1

18S RRNA 2

Nearby chains

Chain A

40S RIBOSOMAL PROTEIN ES26

Chain C

40S RIBOSOMAL PROTEIN ES28