J5_9VVI_003

3D structure

PDB id

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

Description

Cryo-EM structure of SecM-arrested 70S ribosome with YheS

Experimental method

ELECTRON MICROSCOPY

Resolution

2.82 Å

Loop

Sequence

CAAG*CGGACGGG*CAC*GAC*GGCAG

Length

23 nucleotides

Bulged bases

9VVI|1|A|A|109, 9VVI|1|A|C|352

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_9VVI_003 not in the Motif Atlas

Homologous match to J5_6CZR_021

Geometric discrepancy: 0.1308

The information below is about J5_6CZR_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_59910.5

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

9VVI|1|A|C|58
9VVI|1|A|A|59
9VVI|1|A|A|60
9VVI|1|A|G|61
*
9VVI|1|A|C|106
9VVI|1|A|G|107
9VVI|1|A|G|108
9VVI|1|A|A|109
9VVI|1|A|C|110
9VVI|1|A|G|111
9VVI|1|A|G|112
9VVI|1|A|G|113
*
9VVI|1|A|C|314
9VVI|1|A|A|315
9VVI|1|A|C|316
*
9VVI|1|A|G|337
9VVI|1|A|A|338
9VVI|1|A|C|339
*
9VVI|1|A|G|350
9VVI|1|A|G|351
9VVI|1|A|C|352
9VVI|1|A|A|353
9VVI|1|A|G|354

Current chains

Chain A

16S rRNA

Nearby chains

Chain P

Small ribosomal subunit protein bS16

Chain T

Small ribosomal subunit protein bS20

Chain j

50S ribosomal protein L14

Chain o

Large ribosomal subunit protein bL19