J4_5ND9_009

3D structure

PDB id

5ND9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hibernating ribosome from Staphylococcus aureus (Rotated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

CAAAG*UUGAC*GGG*CGG

Length

16 nucleotides

Bulged bases

5ND9|1|A|A|2315

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

J4_5ND9_009 not in the Motif Atlas

Homologous match to J4_9DFE_009

Geometric discrepancy: 0.1568

The information below is about J4_9DFE_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_98139.1

Basepair signature

cWW-F-cWW-tWW-tHH-cWW-cHW-cWW

Number of instances in this motif group

6

Unit IDs

5ND9|1|A|C|2312
5ND9|1|A|A|2313
5ND9|1|A|A|2314
5ND9|1|A|A|2315
5ND9|1|A|G|2316
*
5ND9|1|A|U|2370
5ND9|1|A|U|2371
5ND9|1|A|G|2372
5ND9|1|A|A|2373
5ND9|1|A|C|2374
*
5ND9|1|A|G|2397
5ND9|1|A|G|2398
5ND9|1|A|G|2399
*
5ND9|1|A|C|2408
5ND9|1|A|G|2409
5ND9|1|A|G|2410

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain 5

50S ribosomal protein L33 2

Chain 7

50S ribosomal protein L35

Chain Z

50S ribosomal protein L27