J3_6IP8_026

3D structure

PDB id

6IP8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the HCV IRES dependently initiated CMV-stalled 80S ribosome (Structure iv)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CCGGAC*GGGUGG*CUUAGAUG

Length

20 nucleotides

Bulged bases

6IP8|1|2m|C|1273, 6IP8|1|2m|G|1274, 6IP8|1|2m|G|1507

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

6IP8|1|2m|C|1272
6IP8|1|2m|C|1273
6IP8|1|2m|G|1274
6IP8|1|2m|G|1275
6IP8|1|2m|A|1276
6IP8|1|2m|C|1277
*
6IP8|1|2m|G|1320
6IP8|1|2m|G|1321
6IP8|1|2m|G|1322
6IP8|1|2m|U|1323
6IP8|1|2m|G|1324
6IP8|1|2m|G|1325
*
6IP8|1|2m|C|1503
6IP8|1|2m|U|1504
6IP8|1|2m|U|1505
6IP8|1|2m|A|1506
6IP8|1|2m|G|1507
6IP8|1|2m|A|1508
6IP8|1|2m|U|1509
6IP8|1|2m|G|1510

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 2u

40S ribosomal protein S10

Chain 3E

40S ribosomal protein S29

Chain 3R

Ubiquitin-40S ribosomal protein S27a

Chain zw

Eukaryotic peptide chain release factor subunit 1