IL_5D8B_123

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

CGUU*AAGUG

Length

9 nucleotides

Bulged bases

5D8B|1|VC|G|1248

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_123 not in the Motif Atlas

Geometric match to IL_3WBM_002

Geometric discrepancy: 0.2868

The information below is about IL_3WBM_002

Detailed Annotation

Tandem non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_85033.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

35

Unit IDs

5D8B|1|VC|C|1196
5D8B|1|VC|G|1197
5D8B|1|VC|U|1198
5D8B|1|VC|U|1199
*
5D8B|1|VC|A|1246
5D8B|1|VC|A|1247
5D8B|1|VC|G|1248
5D8B|1|VC|U|1249
5D8B|1|VC|G|1250

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain C

50S ribosomal protein L4

Chain J

50S ribosomal protein L15

Chain O

50S ribosomal protein L20