IL_5ND8_009

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

GAC*GGAUC

Length

8 nucleotides

Bulged bases

None detected

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_009 not in the Motif Atlas

Homologous match to IL_4WF9_012

Geometric discrepancy: 0.377

The information below is about IL_4WF9_012

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform; mini C-loop

Motif group

IL_49061.1

Basepair signature

cWW-L-R-L-cWW-L

Number of instances in this motif group

6

Unit IDs

5ND8|1|A|G|304
5ND8|1|A|A|305
5ND8|1|A|C|306
*
5ND8|1|A|G|409
5ND8|1|A|G|410
5ND8|1|A|A|411
5ND8|1|A|U|412
5ND8|1|A|C|413

Current chains

Chain A

23S ribosomal RNA

Nearby chains