J3_5D8B_059

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

UG*CGCCGAUGG*CAG

Length

14 nucleotides

Bulged bases

5D8B|1|YC|U|723

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

J3_5D8B_059 not in the Motif Atlas

Homologous match to J3_4LFB_012

Geometric discrepancy: 0.1221

The information below is about J3_4LFB_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_74074.1

Basepair signature

cWW-cWW-tWW-cWW-F-F-F-F-F

Number of instances in this motif group

2

Unit IDs

5D8B|1|YC|U|672
5D8B|1|YC|G|673
*
5D8B|1|YC|C|717
5D8B|1|YC|G|718
5D8B|1|YC|C|719
5D8B|1|YC|C|720
5D8B|1|YC|G|721
5D8B|1|YC|A|722
5D8B|1|YC|U|723
5D8B|1|YC|G|724
5D8B|1|YC|G|725
*
5D8B|1|YC|C|732
5D8B|1|YC|A|733
5D8B|1|YC|G|734

Current chains

Chain YC

16S ribosomal RNA

Nearby chains

Chain CC

30S ribosomal protein S6

Chain HC

30S ribosomal protein S11

Chain LC

30S ribosomal protein S15

Chain OC

30S ribosomal protein S18