J3_5D8B_011

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

CAG*CGAAC*GAUG

Length

12 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

J3_5D8B_011 not in the Motif Atlas

Homologous match to J3_4WF9_003

Geometric discrepancy: 0.1169

The information below is about J3_4WF9_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_69816.1

Basepair signature

cWW-tHS-F-cWW-tHS-cWW-F

Number of instances in this motif group

9

Unit IDs

5D8B|1|VC|C|698
5D8B|1|VC|A|699
5D8B|1|VC|G|700
*
5D8B|1|VC|C|732
5D8B|1|VC|G|733
5D8B|1|VC|A|734
5D8B|1|VC|A|735
5D8B|1|VC|C|736
*
5D8B|1|VC|G|760
5D8B|1|VC|A|761
5D8B|1|VC|U|762
5D8B|1|VC|G|763

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain A

50S ribosomal protein L2

Chain AA

50S ribosomal protein L34