IL_5VP2_267

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

GAA*U(PSU)C

Length

6 nucleotides

Bulged bases

None detected

QA status

Self-complementary:

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_267 not in the Motif Atlas

Geometric match to IL_7ECK_013

Geometric discrepancy: 0.1474

The information below is about IL_7ECK_013

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_01003.3

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

214

Unit IDs

5VP2|1|2A|G|2588
5VP2|1|2A|A|2589
5VP2|1|2A|A|2590
*
5VP2|1|2A|U|2604
5VP2|1|2A|PSU|2605
5VP2|1|2A|C|2606

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2x

Transfer RNA; tRNA