J3_5VP2_012

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

CAUC*GUU*AUUAAAG

Length

14 nucleotides

Bulged bases

5VP2|1|1A|A|2530, 5VP2|1|1A|U|2531

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

J3_5VP2_012 not in the Motif Atlas

Homologous match to J3_9DFE_017

Geometric discrepancy: 0.0747

The information below is about J3_9DFE_017

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_32601.6

Basepair signature

cWW-cWH-cWW-tWH-tSS-F-cWW-F

Number of instances in this motif group

4

Unit IDs

5VP2|1|1A|C|2529
5VP2|1|1A|A|2530
5VP2|1|1A|U|2531
5VP2|1|1A|C|2532
*
5VP2|1|1A|G|2557
5VP2|1|1A|U|2558
5VP2|1|1A|U|2559
*
5VP2|1|1A|A|2573
5VP2|1|1A|U|2574
5VP2|1|1A|U|2575
5VP2|1|1A|A|2576
5VP2|1|1A|A|2577
5VP2|1|1A|A|2578
5VP2|1|1A|G|2579

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1O

50S ribosomal protein L14