J3_9VTH_010

3D structure

PDB id

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

Description

cryoEM structure of tobacco mosaic virus tRNA-like structure complexed with tobacco 80S and initiator tRNA

Experimental method

ELECTRON MICROSCOPY

Resolution

4.7 Å

Loop

Sequence

CCAGAC*GGGUG*UUAGAUG

Length

18 nucleotides

Bulged bases

9VTH|1|11|A|1220, 9VTH|1|11|G|1450, 9VTH|1|11|U|1452

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_9VTH_010 not in the Motif Atlas

Homologous match to J3_9H3G_038

Geometric discrepancy: 0.0981

The information below is about J3_9H3G_038

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_87797.4

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

9VTH|1|11|C|1218
9VTH|1|11|C|1219
9VTH|1|11|A|1220
9VTH|1|11|G|1221
9VTH|1|11|A|1222
9VTH|1|11|C|1223
*
9VTH|1|11|G|1266
9VTH|1|11|G|1267
9VTH|1|11|G|1268
9VTH|1|11|U|1269
9VTH|1|11|G|1270
*
9VTH|1|11|U|1447
9VTH|1|11|U|1448
9VTH|1|11|A|1449
9VTH|1|11|G|1450
9VTH|1|11|A|1451
9VTH|1|11|U|1452
9VTH|1|11|G|1453

Current chains

Chain 11

18S rRNA

Nearby chains

Chain SL

40S ribosomal protein S29

Chain SU

40S ribosomal protein S10-1

Chain Sf

Ubiquitin-40S ribosomal protein S27a-like