J3_6P5K_002

3D structure

PDB id

6P5K (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 3)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.1 Å

Loop

Sequence

AG*CGCAAAU*AGU

Length

12 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_6P5K_002 not in the Motif Atlas

Geometric match to J3_4V88_078

Geometric discrepancy: 0.1303

The information below is about J3_4V88_078

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_67856.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

6P5K|1|2|A|40
6P5K|1|2|G|41
*
6P5K|1|2|C|481
6P5K|1|2|G|482
6P5K|1|2|C|483
6P5K|1|2|A|484
6P5K|1|2|A|485
6P5K|1|2|A|486
6P5K|1|2|U|487
*
6P5K|1|2|A|512
6P5K|1|2|G|513
6P5K|1|2|U|514

Current chains

Chain 2

18S rRNA

Nearby chains

Chain K

uS4

Chain Y

uS12