IL_5ND8_108

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

CA*UAG

Length

5 nucleotides

Bulged bases

5ND8|1|B|A|64

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_108 not in the Motif Atlas

Homologous match to IL_4WF9_112

Geometric discrepancy: 0.2875

The information below is about IL_4WF9_112

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_31462.7

Basepair signature

cWW-L-cWW

Number of instances in this motif group

132

Unit IDs

5ND8|1|B|C|15
5ND8|1|B|A|16
*
5ND8|1|B|U|63
5ND8|1|B|A|64
5ND8|1|B|G|65

Current chains

Chain B

5S ribosomal RNA

Nearby chains

Chain A

Large subunit ribosomal RNA; LSU rRNA

Chain R

50S ribosomal protein L18