J3_6IP6_016

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

AG*CGCAAAU*AGU

Length

12 nucleotides

Bulged bases

None detected

QA status

Unknown status

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

J3_6IP6_016 not in the Motif Atlas

Homologous match to J3_8C3A_082

Geometric discrepancy: 0.2187

The information below is about J3_8C3A_082

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_67856.2

Basepair signature

cWW-F-cWW-F-F-cSW-F-cWW

Number of instances in this motif group

5

Unit IDs

6IP6|1|2m|A|40
6IP6|1|2m|G|41
*
6IP6|1|2m|C|481
6IP6|1|2m|G|482
6IP6|1|2m|C|483
6IP6|1|2m|A|484
6IP6|1|2m|A|485
6IP6|1|2m|A|486
6IP6|1|2m|U|487
*
6IP6|1|2m|A|512
6IP6|1|2m|G|513
6IP6|1|2m|U|514

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 3B

40S ribosomal protein S23

Chain 3I

40S ribosomal protein S9