HL_5D8B_112

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

GAAGACGAC

Length

9 nucleotides

Bulged bases

5D8B|1|VC|A|2820

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_112 not in the Motif Atlas

Homologous match to HL_5J7L_201

Geometric discrepancy: 0.0912

The information below is about HL_5J7L_201

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_64690.6

Basepair signature

cWW-cSW-F-F-F-F

Number of instances in this motif group

9

Unit IDs

5D8B|1|VC|G|2819
5D8B|1|VC|A|2820
5D8B|1|VC|A|2821
5D8B|1|VC|G|2822
5D8B|1|VC|A|2823
5D8B|1|VC|C|2824
5D8B|1|VC|G|2825
5D8B|1|VC|A|2826
5D8B|1|VC|C|2827

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3

Chain L

50S ribosomal protein L17