IL_6IP8_279

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

GACU*AUUC

Length

8 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_279 not in the Motif Atlas

Geometric match to IL_8C3A_018

Geometric discrepancy: 0.2706

The information below is about IL_8C3A_018

Detailed Annotation

Tandem non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_67085.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

55

Unit IDs

6IP8|1|2m|G|1536
6IP8|1|2m|A|1537
6IP8|1|2m|C|1538
6IP8|1|2m|U|1539
*
6IP8|1|2m|A|1594
6IP8|1|2m|U|1595
6IP8|1|2m|U|1596
6IP8|1|2m|C|1597

Current chains

Chain 2m

18S ribosomal RNA

Nearby chains

Chain 20

40S ribosomal protein S19

Chain 2r

40S ribosomal protein S5

Chain 2x

40S ribosomal protein S16

Chain 2z

40S ribosomal protein S18

Chain 3O

40S ribosomal protein S25