IL_4V8Q_103

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

UG*CAAG

Length

6 nucleotides

Bulged bases

4V8Q|1|AA|A|2542

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_103 not in the Motif Atlas

Homologous match to IL_5J7L_342

Geometric discrepancy: 0.0639

The information below is about IL_5J7L_342

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform

Motif group

IL_02555.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

9

Unit IDs

4V8Q|1|AA|U|2522
4V8Q|1|AA|G|2523
*
4V8Q|1|AA|C|2540
4V8Q|1|AA|A|2541
4V8Q|1|AA|A|2542
4V8Q|1|AA|G|2543

Current chains

Chain AA

23S ribosomal RNA

Nearby chains

Chain A9

50S RIBOSOMAL PROTEIN L36

Chain AN

50S RIBOSOMAL PROTEIN L13