IL_6IP6_110

3D structure

PDB id

6IP6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the CMV-stalled human 80S ribosome with HCV IRES (Structure iii)

Experimental method

ELECTRON MICROSCOPY

Resolution

4.5 Å

Loop

Sequence

CCAAAUGCCUCG*CGCG

Length

16 nucleotides

Bulged bases

6IP6|1|1A|A|3784, 6IP6|1|1A|A|3785, 6IP6|1|1A|U|3786, 6IP6|1|1A|C|3791, 6IP6|1|1A|C|3810

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_6IP6_110 not in the Motif Atlas

Geometric match to IL_5TBW_090

Geometric discrepancy: 0.2543

The information below is about IL_5TBW_090

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_66080.1

Basepair signature

cWW-cWW-tSH-L-cWW-L

Number of instances in this motif group

5

Unit IDs

6IP6|1|1A|C|3781
6IP6|1|1A|C|3782
6IP6|1|1A|A|3783
6IP6|1|1A|A|3784
6IP6|1|1A|A|3785
6IP6|1|1A|U|3786
6IP6|1|1A|G|3787
6IP6|1|1A|C|3788
6IP6|1|1A|C|3789
6IP6|1|1A|U|3790
6IP6|1|1A|C|3791
6IP6|1|1A|G|3792
*
6IP6|1|1A|C|3808
6IP6|1|1A|G|3809
6IP6|1|1A|C|3810
6IP6|1|1A|G|3811

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 2h

60S ribosomal protein L41

Chain 2m

Small subunit ribosomal RNA; SSU rRNA