J5_6YEF_009

3D structure

PDB id

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

Description

70S initiation complex with assigned rRNA modifications from Staphylococcus aureus

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

CAAG*CGGACGGG*CAC*GAC*GGCAG

Length

23 nucleotides

Bulged bases

6YEF|1|a|A|61, 6YEF|1|a|A|108, 6YEF|1|a|C|360

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_6YEF_009 not in the Motif Atlas

Homologous match to J5_4LFB_002

Geometric discrepancy: 0.1098

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

6YEF|1|a|C|59
6YEF|1|a|A|60
6YEF|1|a|A|61
6YEF|1|a|G|62
*
6YEF|1|a|C|105
6YEF|1|a|G|106
6YEF|1|a|G|107
6YEF|1|a|A|108
6YEF|1|a|C|109
6YEF|1|a|G|110
6YEF|1|a|G|111
6YEF|1|a|G|112
*
6YEF|1|a|C|322
6YEF|1|a|A|323
6YEF|1|a|C|324
*
6YEF|1|a|G|345
6YEF|1|a|A|346
6YEF|1|a|C|347
*
6YEF|1|a|G|358
6YEF|1|a|G|359
6YEF|1|a|C|360
6YEF|1|a|A|361
6YEF|1|a|G|362

Current chains

Chain a

16S rRNA

Nearby chains

Chain N

50S ribosomal protein L14

Chain p

30S ribosomal protein S16

Chain t

30S ribosomal protein S20