J4_5D8B_020

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

GAG*CAUGUG*CAAAG*CGC

Length

17 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

J4_5D8B_020 not in the Motif Atlas

Homologous match to J4_4LFB_002

Geometric discrepancy: 0.1353

The information below is about J4_4LFB_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_88771.1

Basepair signature

cWW-tSS-cWW-tSS-cWW-cWW-tWH-tWH-cSH-cWW

Number of instances in this motif group

1

Unit IDs

5D8B|1|YC|G|142
5D8B|1|YC|A|143
5D8B|1|YC|G|144
*
5D8B|1|YC|C|178
5D8B|1|YC|A|179
5D8B|1|YC|U|180
5D8B|1|YC|G|181
5D8B|1|YC|U|182
5D8B|1|YC|G|183
*
5D8B|1|YC|C|194
5D8B|1|YC|A|195
5D8B|1|YC|A|196
5D8B|1|YC|A|197
5D8B|1|YC|G|198
*
5D8B|1|YC|C|219
5D8B|1|YC|G|220
5D8B|1|YC|C|221

Current chains

Chain YC

16S ribosomal RNA

Nearby chains

Chain QC

30S ribosomal protein S20