J3_4V8Q_018

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

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

4V8Q|1|AA|U|504, 4V8Q|1|AA|G|508

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

J3_4V8Q_018 not in the Motif Atlas

Homologous match to J3_4WF9_011

Geometric discrepancy: 0.2229

The information below is about J3_4WF9_011

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_92134.2

Basepair signature

cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW

Number of instances in this motif group

6

Unit IDs

4V8Q|1|AA|G|30
4V8Q|1|AA|C|31
*
4V8Q|1|AA|G|474
4V8Q|1|AA|U|475
4V8Q|1|AA|G|476
4V8Q|1|AA|A|477
4V8Q|1|AA|A|478
4V8Q|1|AA|A|479
4V8Q|1|AA|A|480
4V8Q|1|AA|G|481
4V8Q|1|AA|A|482
4V8Q|1|AA|A|483
4V8Q|1|AA|C|484
*
4V8Q|1|AA|G|496
4V8Q|1|AA|A|497
4V8Q|1|AA|G|498
4V8Q|1|AA|U|499
4V8Q|1|AA|G|500
4V8Q|1|AA|A|501
4V8Q|1|AA|A|502
4V8Q|1|AA|A|503
4V8Q|1|AA|U|504
4V8Q|1|AA|A|505
4V8Q|1|AA|G|506
4V8Q|1|AA|A|507
4V8Q|1|AA|G|508
4V8Q|1|AA|C|509
4V8Q|1|AA|C|510

Current chains

Chain AA

23S ribosomal RNA

Nearby chains

Chain AU

50S RIBOSOMAL PROTEIN L20

Chain AW

50S RIBOSOMAL PROTEIN L22

Chain AY

50S RIBOSOMAL PROTEIN L24