IL_5ND9_178

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

UCCCAAAAUA*UUA

Length

13 nucleotides

Bulged bases

5ND9|1|A|U|1056

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_178 not in the Motif Atlas

Geometric match to IL_4KNQ_004

Geometric discrepancy: 0.179

The information below is about IL_4KNQ_004

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_44258.3

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

259

Unit IDs

5ND9|1|A|U|1048
5ND9|1|A|C|1049
5ND9|1|A|C|1050
5ND9|1|A|C|1051
5ND9|1|A|A|1052
5ND9|1|A|A|1053
5ND9|1|A|A|1054
5ND9|1|A|A|1055
5ND9|1|A|U|1056
5ND9|1|A|A|1057
*
5ND9|1|A|U|1193
5ND9|1|A|U|1194
5ND9|1|A|A|1195

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain M

50S ribosomal protein L13

Chain T

50S ribosomal protein L20