J5_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

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

4V8Q|1|AA|U|50

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

J5_4V8Q_001 not in the Motif Atlas

Homologous match to J5_9DFE_001

Geometric discrepancy: 0.066

The information below is about J5_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

4V8Q|1|AA|C|47
4V8Q|1|AA|G|48
4V8Q|1|AA|A|49
4V8Q|1|AA|U|50
4V8Q|1|AA|G|51
4V8Q|1|AA|A|52
4V8Q|1|AA|A|53
4V8Q|1|AA|G|54
*
4V8Q|1|AA|C|116
4V8Q|1|AA|G|117
4V8Q|1|AA|A|118
4V8Q|1|AA|A|119
4V8Q|1|AA|U|120
4V8Q|1|AA|G|121
*
4V8Q|1|AA|C|130
4V8Q|1|AA|G|131
*
4V8Q|1|AA|C|148
4V8Q|1|AA|A|149
4V8Q|1|AA|C|150
*
4V8Q|1|AA|G|176
4V8Q|1|AA|G|177
4V8Q|1|AA|G|178

Current chains

Chain AA

23S ribosomal RNA

Nearby chains

Chain A7

50S RIBOSOMAL PROTEIN L34

Chain AX

50S RIBOSOMAL PROTEIN L23