J4_4V8Q_004

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

CGAUAAA*UC*GCGC*GG

Length

15 nucleotides

Bulged bases

4V8Q|1|AA|G|1271, 4V8Q|1|AA|A|1272, 4V8Q|1|AA|U|1273, 4V8Q|1|AA|G|1647

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_004 not in the Motif Atlas

Homologous match to J4_9DFE_003

Geometric discrepancy: 0.0622

The information below is about J4_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.5

Basepair signature

cWW-F-cWW-tSS-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

4V8Q|1|AA|C|1270
4V8Q|1|AA|G|1271
4V8Q|1|AA|A|1272
4V8Q|1|AA|U|1273
4V8Q|1|AA|A|1274
4V8Q|1|AA|A|1275
4V8Q|1|AA|A|1276
*
4V8Q|1|AA|U|1294
4V8Q|1|AA|C|1295
*
4V8Q|1|AA|G|1645
4V8Q|1|AA|C|1646
4V8Q|1|AA|G|1647
4V8Q|1|AA|C|1648
*
4V8Q|1|AA|G|2009
4V8Q|1|AA|G|2010

Current chains

Chain AA

23S ribosomal RNA

Nearby chains

Chain A5

50S RIBOSOMAL PROTEIN L32

Chain AR

50S RIBOSOMAL PROTEIN L17

Chain AW

50S RIBOSOMAL PROTEIN L22