J5_3PIO_004

3D structure

PDB id

3PIO (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit

Experimental method

X-RAY DIFFRACTION

Resolution

3.25 Å

Loop

Sequence

GCAAUCUCA*UC*GC*GUGAAUAGG*CGC

Length

25 nucleotides

Bulged bases

3PIO|1|X|G|1749, 3PIO|1|X|G|1754

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

J5_3PIO_004 not in the Motif Atlas

Homologous match to J5_7A0S_005

Geometric discrepancy: 0.1876

The information below is about J5_7A0S_005

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_99177.2

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

11

Unit IDs

3PIO|1|X|G|1691
3PIO|1|X|C|1692
3PIO|1|X|A|1693
3PIO|1|X|A|1694
3PIO|1|X|U|1695
3PIO|1|X|C|1696
3PIO|1|X|U|1697
3PIO|1|X|C|1698
3PIO|1|X|A|1699
*
3PIO|1|X|U|1723
3PIO|1|X|C|1724
*
3PIO|1|X|G|1742
3PIO|1|X|C|1743
*
3PIO|1|X|G|1747
3PIO|1|X|U|1748
3PIO|1|X|G|1749
3PIO|1|X|A|1750
3PIO|1|X|A|1751
3PIO|1|X|U|1752
3PIO|1|X|A|1753
3PIO|1|X|G|1754
3PIO|1|X|G|1755
*
3PIO|1|X|C|1971
3PIO|1|X|G|1972
3PIO|1|X|C|1973

Current chains

Chain X

RIBOSOMAL 23S RNA

Nearby chains

Chain B

50S ribosomal protein L3

Chain H

50S ribosomal protein L14

Chain M

50S ribosomal protein L19