J3_5VP2_007

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

CGUAAG*CGG*UCAG

Length

13 nucleotides

Bulged bases

None detected

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_007 not in the Motif Atlas

Homologous match to J3_9DFE_010

Geometric discrepancy: 0.0557

The information below is about J3_9DFE_010

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_32852.7

Basepair signature

cWW-tSH-F-F-F-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

5VP2|1|1A|C|1344
5VP2|1|1A|G|1345
5VP2|1|1A|U|1346
5VP2|1|1A|A|1347
5VP2|1|1A|A|1348
5VP2|1|1A|G|1349
*
5VP2|1|1A|C|1671
5VP2|1|1A|G|1672
5VP2|1|1A|G|1673
*
5VP2|1|1A|U|1686
5VP2|1|1A|C|1687
5VP2|1|1A|A|1688
5VP2|1|1A|G|1689

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains