J3_9DOV_039

3D structure

PDB id

9DOV (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) and hygromycin B

Experimental method

ELECTRON MICROSCOPY

Resolution

2.49 Å

Loop

Sequence

UG*UGUC*GAUAA

Length

11 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_9DOV_039 not in the Motif Atlas

Homologous match to J3_9PN5_040

Geometric discrepancy: 0.0831

The information below is about J3_9PN5_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_76043.7

Basepair signature

cWW-cWW-tSS-F-F-F-F-cWW

Number of instances in this motif group

5

Unit IDs

9DOV|1|B5|U|1293
9DOV|1|B5|G|1294
*
9DOV|1|B5|U|1303
9DOV|1|B5|G|1304
9DOV|1|B5|U|1305
9DOV|1|B5|C|1306
*
9DOV|1|B5|G|1318
9DOV|1|B5|A|1319
9DOV|1|B5|U|1320
9DOV|1|B5|A|1321
9DOV|1|B5|A|1322

Current chains

Chain B5

18S rRNA

Nearby chains

Chain BA

40S ribosomal protein S0-A

Chain BC

Small ribosomal subunit protein uS5

Chain BR

40S ribosomal protein S17-A