J4_4V8Q_001

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

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

4V8Q|1|AA|U|405

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

J4_4V8Q_001 not in the Motif Atlas

Homologous match to J4_9DFE_001

Geometric discrepancy: 0.0942

The information below is about J4_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_45801.6

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-F-cWW

Number of instances in this motif group

7

Unit IDs

4V8Q|1|AA|C|268
4V8Q|1|AA|U|269
*
4V8Q|1|AA|G|370
4V8Q|1|AA|A|371
4V8Q|1|AA|G|372
4V8Q|1|AA|U|373
4V8Q|1|AA|A|374
4V8Q|1|AA|C|375
*
4V8Q|1|AA|G|399
4V8Q|1|AA|G|400
4V8Q|1|AA|A|401
4V8Q|1|AA|A|402
4V8Q|1|AA|U|403
4V8Q|1|AA|C|404
4V8Q|1|AA|U|405
4V8Q|1|AA|G|406
*
4V8Q|1|AA|U|421
4V8Q|1|AA|A|422
4V8Q|1|AA|A|423
4V8Q|1|AA|G|424

Current chains

Chain AA

23S ribosomal RNA

Nearby chains

Chain A1

50S RIBOSOMAL PROTEIN L28