J3_5D8B_010

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

CGAGCUA*UAG*CGAG

Length

14 nucleotides

Bulged bases

5D8B|1|VC|G|686, 5D8B|1|VC|G|792

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_010 not in the Motif Atlas

Homologous match to J3_7RQB_004

Geometric discrepancy: 0.1293

The information below is about J3_7RQB_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_39238.4

Basepair signature

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

Number of instances in this motif group

7

Unit IDs

5D8B|1|VC|C|683
5D8B|1|VC|G|684
5D8B|1|VC|A|685
5D8B|1|VC|G|686
5D8B|1|VC|C|687
5D8B|1|VC|U|688
5D8B|1|VC|A|689
*
5D8B|1|VC|U|773
5D8B|1|VC|A|774
5D8B|1|VC|G|775
*
5D8B|1|VC|C|791
5D8B|1|VC|G|792
5D8B|1|VC|A|793
5D8B|1|VC|G|794

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain A

50S ribosomal protein L2

Chain AA

50S ribosomal protein L34