IL_5D8B_171

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

CCGAG*CGGCG

Length

10 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_171 not in the Motif Atlas

Homologous match to IL_7A0S_087

Geometric discrepancy: 0.175

The information below is about IL_7A0S_087

Detailed Annotation

Double sheared with non-canonical cWW

Broad Annotation

Double sheared

Motif group

IL_17948.2

Basepair signature

cWW-L-R-tSH-tHS-cWW

Number of instances in this motif group

13

Unit IDs

5D8B|1|VC|C|2466
5D8B|1|VC|C|2467
5D8B|1|VC|G|2468
5D8B|1|VC|A|2469
5D8B|1|VC|G|2470
*
5D8B|1|VC|C|2480
5D8B|1|VC|G|2481
5D8B|1|VC|G|2482
5D8B|1|VC|C|2483
5D8B|1|VC|G|2484

Current chains

Chain VC

23S ribosomal RNA

Nearby chains

Chain K

50S ribosomal protein L16

Chain T

50S ribosomal protein L25