J3_9VTH_019

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

CUCG*CGAUAGCGAACAAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

9VTH|1|13|C|26, 9VTH|1|14|U|340, 9VTH|1|14|A|348

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_019 not in the Motif Atlas

Homologous match to J3_9H3G_003

Geometric discrepancy: 0.0772

The information below is about J3_9H3G_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_07616.4

Basepair signature

cWW-cSS-tSS-tSW-tHW-cWW-tWH-F-F-tHH-tSS-tWH-F-tHS-cWW-F-cSH

Number of instances in this motif group

12

Unit IDs

9VTH|1|13|C|24
9VTH|1|13|U|25
9VTH|1|13|C|26
9VTH|1|13|G|27
*
9VTH|1|14|C|337
9VTH|1|14|G|338
9VTH|1|14|A|339
9VTH|1|14|U|340
9VTH|1|14|A|341
9VTH|1|14|G|342
9VTH|1|14|C|343
9VTH|1|14|G|344
9VTH|1|14|A|345
9VTH|1|14|A|346
9VTH|1|14|C|347
9VTH|1|14|A|348
9VTH|1|14|A|349
9VTH|1|14|G|350
9VTH|1|14|U|351
9VTH|1|14|A|352
9VTH|1|14|C|353
*
9VTH|1|14|G|360
9VTH|1|14|G|361
9VTH|1|14|A|362
9VTH|1|14|A|363
9VTH|1|14|A|364
9VTH|1|14|G|365

Current chains

Chain 13

5.8S rRNA

Chain 14

25S rRNA

Nearby chains

Chain LD

60S ribosomal protein L4-like

Chain LN

60S ribosomal protein L26-1

Chain Lk

Ribosomal protein L37

Chain Lm

60S ribosomal protein L39-3