IL_5D8B_428

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

GGACG*CGGUAC

Length

11 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_428 not in the Motif Atlas

Homologous match to IL_4LFB_018

Geometric discrepancy: 0.1671

The information below is about IL_4LFB_018

Detailed Annotation

6x5 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_82100.1

Basepair signature

cWW-tWW-cSH-tWH-tHS-cWW

Number of instances in this motif group

3

Unit IDs

5D8B|1|YC|G|446
5D8B|1|YC|G|447
5D8B|1|YC|A|448
5D8B|1|YC|C|449
5D8B|1|YC|G|450
*
5D8B|1|YC|C|483
5D8B|1|YC|G|484
5D8B|1|YC|G|485
5D8B|1|YC|U|486
5D8B|1|YC|A|487
5D8B|1|YC|C|488

Current chains

Chain YC

16S ribosomal RNA

Nearby chains

Chain AC

30S ribosomal protein S4

Chain MC

30S ribosomal protein S16