HL_6IP8_005

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

UCUGAUCG

Length

8 nucleotides

Bulged bases

6IP8|1|1A|C|210

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

HL_6IP8_005 not in the Motif Atlas

Homologous match to HL_8C3A_005

Geometric discrepancy: 0.2561

The information below is about HL_8C3A_005

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_58705.1

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

6IP8|1|1A|U|204
6IP8|1|1A|C|205
6IP8|1|1A|U|206
6IP8|1|1A|G|207
6IP8|1|1A|A|208
6IP8|1|1A|U|209
6IP8|1|1A|C|210
6IP8|1|1A|G|211

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 2S

60S ribosomal protein L26

Chain 2Y

60S ribosomal protein L32