HL_5D8B_076

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

GUGAGAAUC

Length

9 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

HL_5D8B_076 not in the Motif Atlas

Homologous match to HL_4WF9_032

Geometric discrepancy: 0.0983

The information below is about HL_4WF9_032

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_33597.3

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

135

Unit IDs

5D8B|1|VC|G|1281
5D8B|1|VC|U|1282
5D8B|1|VC|G|1283
5D8B|1|VC|A|1284
5D8B|1|VC|G|1285
5D8B|1|VC|A|1286
5D8B|1|VC|A|1287
5D8B|1|VC|U|1288
5D8B|1|VC|C|1289

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain L

50S ribosomal protein L17

Chain Q

50S ribosomal protein L22