IL_5VP2_080

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

CAG*CGGG

Length

7 nucleotides

Bulged bases

5VP2|1|1A|G|2250

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_080 not in the Motif Atlas

Homologous match to IL_9DFE_082

Geometric discrepancy: 0.085

The information below is about IL_9DFE_082

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_87316.2

Basepair signature

cWW-tHS-cWW

Number of instances in this motif group

13

Unit IDs

5VP2|1|1A|C|2103
5VP2|1|1A|A|2104
5VP2|1|1A|G|2105
*
5VP2|1|1A|C|2248
5VP2|1|1A|G|2249
5VP2|1|1A|G|2250
5VP2|1|1A|G|2251

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 11

50S ribosomal protein L28

Chain 1D

50S ribosomal protein L2