IL_5VP2_269

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

UUGAG*CAAGAUGAG

Length

14 nucleotides

Bulged bases

5VP2|1|2A|G|2780

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_269 not in the Motif Atlas

Homologous match to IL_9DFE_101

Geometric discrepancy: 0.0878

The information below is about IL_9DFE_101

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_04638.3

Basepair signature

cWW-tSH-tHW-tHS-cSH-cWW-L

Number of instances in this motif group

5

Unit IDs

5VP2|1|2A|U|2636
5VP2|1|2A|U|2637
5VP2|1|2A|G|2638
5VP2|1|2A|A|2639
5VP2|1|2A|G|2640
*
5VP2|1|2A|C|2774
5VP2|1|2A|A|2775
5VP2|1|2A|A|2776
5VP2|1|2A|G|2777
5VP2|1|2A|A|2778
5VP2|1|2A|U|2779
5VP2|1|2A|G|2780
5VP2|1|2A|A|2781
5VP2|1|2A|G|2782

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2E

50S ribosomal protein L3

Chain 2N

50S ribosomal protein L13