IL_5D8B_083

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

UGAGUAG*CGAAAG

Length

13 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

IL_5D8B_083 not in the Motif Atlas

Homologous match to IL_7RQB_007

Geometric discrepancy: 0.0744

The information below is about IL_7RQB_007

Detailed Annotation

7x6 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_76042.2

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

9

Unit IDs

5D8B|1|VC|U|239
5D8B|1|VC|G|240
5D8B|1|VC|A|241
5D8B|1|VC|G|242
5D8B|1|VC|U|243
5D8B|1|VC|A|244
5D8B|1|VC|G|245
*
5D8B|1|VC|C|253
5D8B|1|VC|G|254
5D8B|1|VC|A|255
5D8B|1|VC|A|256
5D8B|1|VC|A|257
5D8B|1|VC|G|258

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain BA

50S ribosomal protein L35

Chain J

50S ribosomal protein L15