IL_5ND9_062

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

UGCUAAA*UGAUGUAUA

Length

16 nucleotides

Bulged bases

5ND9|1|A|U|1828, 5ND9|1|A|U|1843, 5ND9|1|A|U|1847

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_062 not in the Motif Atlas

Homologous match to IL_7A0S_065

Geometric discrepancy: 0.1534

The information below is about IL_7A0S_065

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_17069.6

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

5ND9|1|A|U|1825
5ND9|1|A|G|1826
5ND9|1|A|C|1827
5ND9|1|A|U|1828
5ND9|1|A|A|1829
5ND9|1|A|A|1830
5ND9|1|A|A|1831
*
5ND9|1|A|U|1840
5ND9|1|A|G|1841
5ND9|1|A|A|1842
5ND9|1|A|U|1843
5ND9|1|A|G|1844
5ND9|1|A|U|1845
5ND9|1|A|A|1846
5ND9|1|A|U|1847
5ND9|1|A|A|1848

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain D

50S ribosomal protein L2

Chain a

Small subunit ribosomal RNA; SSU rRNA