IL_5ND9_017

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

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

5ND9|1|A|G|846, 5ND9|1|A|G|850

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

IL_5ND9_017 not in the Motif Atlas

Geometric match to IL_7RQB_018

Geometric discrepancy: 0.1703

The information below is about IL_7RQB_018

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_17470.6

Basepair signature

cWW-tWW-L-R-tWH-L-cWW

Number of instances in this motif group

7

Unit IDs

5ND9|1|A|G|719
5ND9|1|A|A|720
5ND9|1|A|A|721
5ND9|1|A|A|722
5ND9|1|A|C|723
*
5ND9|1|A|G|844
5ND9|1|A|A|845
5ND9|1|A|G|846
5ND9|1|A|A|847
5ND9|1|A|U|848
5ND9|1|A|A|849
5ND9|1|A|G|850
5ND9|1|A|C|851

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain F

50S ribosomal protein L4

Chain O

50S ribosomal protein L15