J5_2OGO_004

3D structure

PDB id

2OGO (explore in PDB, NAKB, or RNA 3D Hub)

Description

The crystal structure of the large ribosomal subunit from Deinococcus radiodurans complexed with the pleuromutilin derivative retapamulin (SB-275833)

Experimental method

X-RAY DIFFRACTION

Resolution

3.66 Å

Loop

Sequence

GCAAUCUCA*UC*GC*GUGAAUAGG*CGC

Length

25 nucleotides

Bulged bases

2OGO|1|0|G|1749, 2OGO|1|0|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_2OGO_004 not in the Motif Atlas

Homologous match to J5_7A0S_005

Geometric discrepancy: 0.1988

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

2OGO|1|0|G|1691
2OGO|1|0|C|1692
2OGO|1|0|A|1693
2OGO|1|0|A|1694
2OGO|1|0|U|1695
2OGO|1|0|C|1696
2OGO|1|0|U|1697
2OGO|1|0|C|1698
2OGO|1|0|A|1699
*
2OGO|1|0|U|1723
2OGO|1|0|C|1724
*
2OGO|1|0|G|1742
2OGO|1|0|C|1743
*
2OGO|1|0|G|1747
2OGO|1|0|U|1748
2OGO|1|0|G|1749
2OGO|1|0|A|1750
2OGO|1|0|A|1751
2OGO|1|0|U|1752
2OGO|1|0|A|1753
2OGO|1|0|G|1754
2OGO|1|0|G|1755
*
2OGO|1|0|C|1971
2OGO|1|0|G|1972
2OGO|1|0|C|1973

Current chains

Chain 0

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3