J3_6IP8_011

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

UG*CGACC*GA

Length

9 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

J3_6IP8_011 not in the Motif Atlas

Homologous match to J3_8C3A_054

Geometric discrepancy: 0.2479

The information below is about J3_8C3A_054

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_16991.1

Basepair signature

cWW-F-cWW-F-F-cWW

Number of instances in this motif group

3

Unit IDs

6IP8|1|1A|U|2575
6IP8|1|1A|G|2576
*
6IP8|1|1A|C|2585
6IP8|1|1A|G|2586
6IP8|1|1A|A|2587
6IP8|1|1A|C|2588
6IP8|1|1A|C|2589
*
6IP8|1|1A|G|2756
6IP8|1|1A|A|2757

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 2T

60S ribosomal protein L27

Chain 2a

60S ribosomal protein L34