J3_6IP6_043

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

CAG*CGUAG*UCCG

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_043 not in the Motif Atlas

Homologous match to J3_8CRE_010

Geometric discrepancy: 0.2042

The information below is about J3_8CRE_010

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_44724.7

Basepair signature

cWW-tHS-F-cWW-tHS-cWW-F

Number of instances in this motif group

6

Unit IDs

6IP6|1|1A|C|1546
6IP6|1|1A|A|1547
6IP6|1|1A|G|1548
*
6IP6|1|1A|C|1580
6IP6|1|1A|G|1581
6IP6|1|1A|U|1582
6IP6|1|1A|A|1583
6IP6|1|1A|G|1584
*
6IP6|1|1A|U|1609
6IP6|1|1A|C|1610
6IP6|1|1A|C|1611
6IP6|1|1A|G|1612

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1D

60S ribosomal protein L8

Chain 2L

60S ribosomal protein L19

Chain 2j

60S ribosomal protein L37a