IL_6IP8_095

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

GGAA*UC

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

IL_6IP8_095 not in the Motif Atlas

Geometric match to IL_5J7L_306

Geometric discrepancy: 0.156

The information below is about IL_5J7L_306

Detailed Annotation

Major groove platform; stack outside cWW

Broad Annotation

Major groove platform

Motif group

IL_50694.7

Basepair signature

cWW-tSH-cWW-L

Number of instances in this motif group

27

Unit IDs

6IP8|1|1A|G|2847
6IP8|1|1A|G|2848
6IP8|1|1A|A|2849
6IP8|1|1A|A|2850
*
6IP8|1|1A|U|3840
6IP8|1|1A|C|3841

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1E

60S ribosomal protein L3

Chain 2P

60S ribosomal protein L23