IL_6IP8_259

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

GAUC*GAC

Length

7 nucleotides

Bulged bases

6IP8|1|1A|A|4292

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_6IP8_259 not in the Motif Atlas

Geometric match to IL_4V88_455

Geometric discrepancy: 0.2022

The information below is about IL_4V88_455

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_44258.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

301

Unit IDs

6IP8|1|1A|G|4291
6IP8|1|1A|A|4292
6IP8|1|1A|U|4293
6IP8|1|1A|C|4294
*
6IP8|1|1A|G|4316
6IP8|1|1A|A|4317
6IP8|1|1A|C|4318

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 2N

60S ribosomal protein L21

Chain 2V

60S ribosomal protein L29

Chain 2i

60S ribosomal protein L36a