HL_5D8B_089

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

UUUACCAAAAA

Length

11 nucleotides

Bulged bases

5D8B|1|VC|A|1780, 5D8B|1|VC|C|1781, 5D8B|1|VC|C|1782, 5D8B|1|VC|A|1786

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_089 not in the Motif Atlas

Homologous match to HL_4WF9_043

Geometric discrepancy: 0.093

The information below is about HL_4WF9_043

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_01962.2

Basepair signature

cWW-tWH-tWH-F

Number of instances in this motif group

6

Unit IDs

5D8B|1|VC|U|1777
5D8B|1|VC|U|1778
5D8B|1|VC|U|1779
5D8B|1|VC|A|1780
5D8B|1|VC|C|1781
5D8B|1|VC|C|1782
5D8B|1|VC|A|1783
5D8B|1|VC|A|1784
5D8B|1|VC|A|1785
5D8B|1|VC|A|1786
5D8B|1|VC|A|1787

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain A

50S ribosomal protein L2

Chain AA

50S ribosomal protein L34