J5_9VTH_001

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

CUUGU*AAAUAAC*GGAAUG*CCAU*AUAG

Length

26 nucleotides

Bulged bases

9VTH|1|11|C|547

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

J5_9VTH_001 not in the Motif Atlas

Homologous match to J5_9H3G_007

Geometric discrepancy: 0.0985

The information below is about J5_9H3G_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_04786.3

Basepair signature

cWW-F-F-F-F-F-cWW-cWW-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

9VTH|1|11|C|31
9VTH|1|11|U|32
9VTH|1|11|U|33
9VTH|1|11|G|34
9VTH|1|11|U|35
*
9VTH|1|11|A|477
9VTH|1|11|A|478
9VTH|1|11|A|479
9VTH|1|11|U|480
9VTH|1|11|A|481
9VTH|1|11|A|482
9VTH|1|11|C|483
*
9VTH|1|11|G|512
9VTH|1|11|G|513
9VTH|1|11|A|514
9VTH|1|11|A|515
9VTH|1|11|U|516
9VTH|1|11|G|517
*
9VTH|1|11|C|546
9VTH|1|11|C|547
9VTH|1|11|A|548
9VTH|1|11|U|549
*
9VTH|1|11|A|595
9VTH|1|11|U|596
9VTH|1|11|A|597
9VTH|1|11|G|598

Current chains

Chain 11

18S rRNA

Nearby chains

Chain SC

40S ribosomal protein S9-2-like

Chain SJ

40S ribosomal protein S23

Chain Se

40S ribosomal protein S30