J4_5D8B_004

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

GAGUAACG*UC*GUAG*CC

Length

16 nucleotides

Bulged bases

5D8B|1|UC|C|121

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

J4_5D8B_004 not in the Motif Atlas

Homologous match to J4_4LFB_001

Geometric discrepancy: 0.0883

The information below is about J4_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_90044.1

Basepair signature

cWW-F-cWW-F-F-F-tHW-F-cWW-cWW

Number of instances in this motif group

2

Unit IDs

5D8B|1|UC|G|115
5D8B|1|UC|A|116
5D8B|1|UC|G|117
5D8B|1|UC|U|118
5D8B|1|UC|A|119
5D8B|1|UC|A|120
5D8B|1|UC|C|121
5D8B|1|UC|G|122
*
5D8B|1|UC|U|239
5D8B|1|UC|C|240
*
5D8B|1|UC|G|286
5D8B|1|UC|U|287
5D8B|1|UC|A|288
5D8B|1|UC|G|289
*
5D8B|1|UC|C|311
5D8B|1|UC|C|312

Current chains

Chain UC

16S ribosomal RNA

Nearby chains

Chain MA

30S ribosomal protein S12

Chain QA

30S ribosomal protein S16

Chain RA

30S ribosomal protein S17