HL_5D8B_054

3D structure

PDB id

5D8B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch

Experimental method

X-RAY DIFFRACTION

Resolution

3.63 Å

Loop

Sequence

UUGGGAAG

Length

8 nucleotides

Bulged bases

5D8B|1|VC|A|311

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

HL_5D8B_054 not in the Motif Atlas

Homologous match to HL_5J7L_142

Geometric discrepancy: 0.1179

The information below is about HL_5J7L_142

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_01609.3

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

18

Unit IDs

5D8B|1|VC|U|305
5D8B|1|VC|U|306
5D8B|1|VC|G|307
5D8B|1|VC|G|308
5D8B|1|VC|G|309
5D8B|1|VC|A|310
5D8B|1|VC|A|311
5D8B|1|VC|G|312

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain S

50S ribosomal protein L24