J3_6IP6_010

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

CGG*CUGAC*GGACAG

Length

14 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_010 not in the Motif Atlas

Geometric match to J3_5J7L_044

Geometric discrepancy: 0.3692

The information below is about J3_5J7L_044

Detailed Annotation

Kink-turn 3-way junction

Broad Annotation

No text annotation

Motif group

J3_89368.5

Basepair signature

cWW-tSH-tHW-F-cWW-tHH-cWW

Number of instances in this motif group

3

Unit IDs

6IP6|1|1A|C|3937
6IP6|1|1A|G|3938
6IP6|1|1A|G|3939
*
6IP6|1|1A|C|4074
6IP6|1|1A|U|4075
6IP6|1|1A|G|4076
6IP6|1|1A|A|4077
6IP6|1|1A|C|4078
*
6IP6|1|1A|G|4168
6IP6|1|1A|G|4169
6IP6|1|1A|A|4170
6IP6|1|1A|C|4171
6IP6|1|1A|A|4172
6IP6|1|1A|G|4173

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1D

60S ribosomal protein L8

Chain 2B

60S ribosomal protein L7a

Chain 2H

60S ribosomal protein L15