IL_5VP2_223

3D structure

PDB id

5VP2 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

UAG*CAGG

Length

7 nucleotides

Bulged bases

5VP2|1|2A|G|1559

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_5VP2_223 not in the Motif Atlas

Homologous match to IL_9DFE_055

Geometric discrepancy: 0.2075

The information below is about IL_9DFE_055

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_67095.2

Basepair signature

cWW-tWW-cWW

Number of instances in this motif group

8

Unit IDs

5VP2|1|2A|U|1433
5VP2|1|2A|A|1434
5VP2|1|2A|G|1435
*
5VP2|1|2A|C|1557
5VP2|1|2A|A|1558
5VP2|1|2A|G|1559
5VP2|1|2A|G|1560

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2