IL_5D8B_429

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

GUGCCAG*CGGUAAUAC

Length

16 nucleotides

Bulged bases

5D8B|1|YC|A|532, 5D8B|1|YC|U|534, 5D8B|1|YC|A|535

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_429 not in the Motif Atlas

Homologous match to IL_4LFB_021

Geometric discrepancy: 0.2839

The information below is about IL_4LFB_021

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_52042.1

Basepair signature

cWW-cSW-tWH-L-R-L-R-tHS-cWW

Number of instances in this motif group

5

Unit IDs

5D8B|1|YC|G|515
5D8B|1|YC|U|516
5D8B|1|YC|G|517
5D8B|1|YC|C|518
5D8B|1|YC|C|519
5D8B|1|YC|A|520
5D8B|1|YC|G|521
*
5D8B|1|YC|C|528
5D8B|1|YC|G|529
5D8B|1|YC|G|530
5D8B|1|YC|U|531
5D8B|1|YC|A|532
5D8B|1|YC|A|533
5D8B|1|YC|U|534
5D8B|1|YC|A|535
5D8B|1|YC|C|536

Current chains

Chain YC

16S ribosomal RNA

Nearby chains

Chain AC

30S ribosomal protein S4

Chain IC

30S ribosomal protein S12

Chain ZB

30S ribosomal protein S3