IL_4V8Q_098

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

AUC*GGUUU

Length

8 nucleotides

Bulged bases

None detected

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_098 not in the Motif Atlas

Homologous match to IL_7RQB_094

Geometric discrepancy: 0.1039

The information below is about IL_7RQB_094

Detailed Annotation

Major groove minor groove platform with extra cWW

Broad Annotation

Major groove minor groove platform; mini C-loop

Motif group

IL_92788.2

Basepair signature

cWW-L-R-L-cWW-L

Number of instances in this motif group

14

Unit IDs

4V8Q|1|AA|A|2459
4V8Q|1|AA|U|2460
4V8Q|1|AA|C|2461
*
4V8Q|1|AA|G|2489
4V8Q|1|AA|G|2490
4V8Q|1|AA|U|2491
4V8Q|1|AA|U|2492
4V8Q|1|AA|U|2493

Current chains

Chain AA

23S ribosomal RNA

Nearby chains

Chain A0

50S RIBOSOMAL PROTEIN L27

Chain AQ

50S RIBOSOMAL PROTEIN L16