IL_5ND8_183

3D structure

PDB id

5ND8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hibernating ribosome from Staphylococcus aureus (Unrotated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

UGC*GUAAA

Length

8 nucleotides

Bulged bases

5ND8|1|A|A|1926, 5ND8|1|A|A|1927

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_5ND8_183 not in the Motif Atlas

Geometric match to IL_4PKD_001

Geometric discrepancy: 0.2532

The information below is about IL_4PKD_001

Detailed Annotation

Isolated non-canonical cWW with bulges

Broad Annotation

Isolated non-canonical cWW with bulges

Motif group

IL_68118.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

28

Unit IDs

5ND8|1|A|U|1868
5ND8|1|A|G|1869
5ND8|1|A|C|1870
*
5ND8|1|A|G|1924
5ND8|1|A|U|1925
5ND8|1|A|A|1926
5ND8|1|A|A|1927
5ND8|1|A|A|1928

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain D

50S ribosomal protein L2

Chain a

Small subunit ribosomal RNA; SSU rRNA