IL_6IP8_097

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

CGUAAC*GGAUAAG

Length

13 nucleotides

Bulged bases

6IP8|1|1A|U|2880

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_097 not in the Motif Atlas

Homologous match to IL_8C3A_084

Geometric discrepancy: 0.1399

The information below is about IL_8C3A_084

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_65969.4

Basepair signature

cWW-tSH-L-R-tHH-tHS-cWW

Number of instances in this motif group

7

Unit IDs

6IP8|1|1A|C|2867
6IP8|1|1A|G|2868
6IP8|1|1A|U|2869
6IP8|1|1A|A|2870
6IP8|1|1A|A|2871
6IP8|1|1A|C|2872
*
6IP8|1|1A|G|2877
6IP8|1|1A|G|2878
6IP8|1|1A|A|2879
6IP8|1|1A|U|2880
6IP8|1|1A|A|2881
6IP8|1|1A|A|2882
6IP8|1|1A|G|2883

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 2h

60S ribosomal protein L41

Chain 2j

60S ribosomal protein L37a

Chain 2m

Small subunit ribosomal RNA; SSU rRNA