IL_6IP8_043

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

GG*CGCC

Length

6 nucleotides

Bulged bases

6IP8|1|1A|C|1378

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_043 not in the Motif Atlas

Geometric match to IL_1U9S_003

Geometric discrepancy: 0.1558

The information below is about IL_1U9S_003

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_71421.2

Basepair signature

cWW-cWW

Number of instances in this motif group

35

Unit IDs

6IP8|1|1A|G|1360
6IP8|1|1A|G|1361
*
6IP8|1|1A|C|1376
6IP8|1|1A|G|1377
6IP8|1|1A|C|1378
6IP8|1|1A|C|1379

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1F

60S ribosomal protein L4

Chain 2F

60S ribosomal protein L13

Chain 2H

60S ribosomal protein L15