HL_4D5Y_067

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

UGAGGA

Length

6 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

HL_4D5Y_067 not in the Motif Atlas

Homologous match to HL_5TBW_066

Geometric discrepancy: 0.2327

The information below is about HL_5TBW_066

Detailed Annotation

Ribsomal LSU H95

Broad Annotation

Ribsomal LSU H95

Motif group

HL_65794.1

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

11

Unit IDs

4D5Y|1|2|U|4606
4D5Y|1|2|G|4607
4D5Y|1|2|A|4608
4D5Y|1|2|G|4609
4D5Y|1|2|G|4610
4D5Y|1|2|A|4611

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain R

60S RIBOSOMAL PROTEIN UL19

Chain U

60S RIBOSOMAL PROTEIN EL22

Chain d

60S RIBOSOMAL PROTEIN EL31