IL_4V8Q_069

3D structure

PDB id

4V8Q (explore in PDB, NAKB, or RNA 3D Hub)

Description

Complex of SmpB, a tmRNA fragment and EF-Tu-GDP-Kirromycin with the 70S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

CCGG*CG

Length

6 nucleotides

Bulged bases

4V8Q|1|AA|C|1838

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_4V8Q_069 not in the Motif Atlas

Homologous match to IL_5J7L_314

Geometric discrepancy: 0.1235

The information below is about IL_5J7L_314

Detailed Annotation

Minor groove platform, major groove intercalation

Broad Annotation

Minor groove platform, major groove intercalation

Motif group

IL_95583.2

Basepair signature

cWW-L-cWW

Number of instances in this motif group

11

Unit IDs

4V8Q|1|AA|C|1837
4V8Q|1|AA|C|1838
4V8Q|1|AA|G|1839
4V8Q|1|AA|G|1840
*
4V8Q|1|AA|C|1902
4V8Q|1|AA|G|1903

Current chains

Chain AA

23S ribosomal RNA

Nearby chains

Chain AD

50S RIBOSOMAL PROTEIN L2

Chain BA

Small subunit ribosomal RNA; SSU rRNA