IL_5D8B_214

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

CGGCCAAC*GG

Length

10 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_5D8B_214 not in the Motif Atlas

Homologous match to IL_4LFB_020

Geometric discrepancy: 0.2249

The information below is about IL_4LFB_020

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_11411.1

Basepair signature

cWW-L-cWW-L-L-R-cSH

Number of instances in this motif group

12

Unit IDs

5D8B|1|YC|C|504
5D8B|1|YC|G|505
5D8B|1|YC|G|506
5D8B|1|YC|C|507
5D8B|1|YC|C|508
5D8B|1|YC|A|509
5D8B|1|YC|A|510
5D8B|1|YC|C|511
*
5D8B|1|YC|G|540
5D8B|1|YC|G|541

Current chains

Chain YC

16S ribosomal RNA

Nearby chains

Chain AC

30S ribosomal protein S4

Chain BC

30S ribosomal protein S5

Chain IC

30S ribosomal protein S12