J3_6P5J_031

3D structure

PDB id

6P5J (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 2)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

AGAUUAAG*CGCGCAAAU*AGU

Length

20 nucleotides

Bulged bases

6P5J|1|2|A|46

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_6P5J_031 not in the Motif Atlas

Homologous match to J3_8P9A_069

Geometric discrepancy: 0.1132

The information below is about J3_8P9A_069

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_63856.1

Basepair signature

cWW-cWW-cSW-F-cWW-F-tHH-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

6P5J|1|2|A|40
6P5J|1|2|G|41
6P5J|1|2|A|42
6P5J|1|2|U|43
6P5J|1|2|U|44
6P5J|1|2|A|45
6P5J|1|2|A|46
6P5J|1|2|G|47
*
6P5J|1|2|C|479
6P5J|1|2|G|480
6P5J|1|2|C|481
6P5J|1|2|G|482
6P5J|1|2|C|483
6P5J|1|2|A|484
6P5J|1|2|A|485
6P5J|1|2|A|486
6P5J|1|2|U|487
*
6P5J|1|2|A|512
6P5J|1|2|G|513
6P5J|1|2|U|514

Current chains

Chain 2

18S rRNA

Nearby chains

Chain K

uS4

Chain Y

uS12