J5_6NY6_002

3D structure

PDB id

6NY6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of dimeric Escherichia coli toxin YoeB bound to the Thermus thermophilus 30S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.74 Å

Loop

Sequence

CAAG*CGGACGGG*CAG*CAC*GGCAG

Length

23 nucleotides

Bulged bases

6NY6|1|A|A|109, 6NY6|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_6NY6_002 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.0765

The information below is about J5_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_58574.1

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

6NY6|1|A|C|58
6NY6|1|A|A|59
6NY6|1|A|A|60
6NY6|1|A|G|61
*
6NY6|1|A|C|106
6NY6|1|A|G|107
6NY6|1|A|G|108
6NY6|1|A|A|109
6NY6|1|A|C|110
6NY6|1|A|G|111
6NY6|1|A|G|112
6NY6|1|A|G|113
*
6NY6|1|A|C|314
6NY6|1|A|A|315
6NY6|1|A|G|316
*
6NY6|1|A|C|337
6NY6|1|A|A|338
6NY6|1|A|C|339
*
6NY6|1|A|G|350
6NY6|1|A|G|351
6NY6|1|A|C|352
6NY6|1|A|A|353
6NY6|1|A|G|354

Current chains

Chain A

16S rRNA

Nearby chains

Chain P

30S ribosomal protein S16

Chain T

30S ribosomal protein S20