J3_6W2S_019

3D structure

PDB id

6W2S (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Cricket Paralysis Virus 5-UTR IRES (CrPV 5-UTR-IRES) bound to the small ribosomal subunit in the open state (Class 1)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.47 Å

Loop

Sequence

AGAUUAAG*CGCGCAAAU*AGU

Length

20 nucleotides

Bulged bases

6W2S|1|A|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_6W2S_019 not in the Motif Atlas

Homologous match to J3_8C3A_083

Geometric discrepancy: 0.0929

The information below is about J3_8C3A_083

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46317.2

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

6W2S|1|A|A|40
6W2S|1|A|G|41
6W2S|1|A|A|42
6W2S|1|A|U|43
6W2S|1|A|U|44
6W2S|1|A|A|45
6W2S|1|A|A|46
6W2S|1|A|G|47
*
6W2S|1|A|C|479
6W2S|1|A|G|480
6W2S|1|A|C|481
6W2S|1|A|G|482
6W2S|1|A|C|483
6W2S|1|A|A|484
6W2S|1|A|A|485
6W2S|1|A|A|486
6W2S|1|A|U|487
*
6W2S|1|A|A|512
6W2S|1|A|G|513
6W2S|1|A|U|514

Current chains

Chain A

18S rRNA

Nearby chains

Chain K

uS4

Chain Y

uS12