HL_4D5Y_060

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

GUGAAAGC

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_4D5Y_060 not in the Motif Atlas

Geometric match to HL_7A0S_056

Geometric discrepancy: 0.3512

The information below is about HL_7A0S_056

Detailed Annotation

GNRA with extra cWW

Broad Annotation

GNRA with extra cWW

Motif group

HL_87268.1

Basepair signature

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

Number of instances in this motif group

16

Unit IDs

4D5Y|1|2|G|4280
4D5Y|1|2|U|4281
4D5Y|1|2|G|4282
4D5Y|1|2|A|4283
4D5Y|1|2|A|4284
4D5Y|1|2|A|4285
4D5Y|1|2|G|4286
4D5Y|1|2|C|4287

Current chains

Chain 2

28S Ribosomal RNA

Nearby chains

Chain D

60S RIBOSOMAL PROTEIN UL18

Chain T

60S RIBOSOMAL PROTEIN EL21

Chain o

60S RIBOSOMAL PROTEIN EL44