J5_2OGO_009

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

AAAAGACC*GGAUAACA*UCGAUGUCG*UGGGUUCAG*CGGUCU

Length

40 nucleotides

Bulged bases

2OGO|1|0|A|2045, 2OGO|1|0|A|2427, 2OGO|1|0|U|2428, 2OGO|1|0|U|2483, 2OGO|1|0|G|2484, 2OGO|1|0|U|2485, 2OGO|1|0|U|2564, 2OGO|1|0|U|2588

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

2OGO|1|0|A|2040
2OGO|1|0|A|2041
2OGO|1|0|A|2042
2OGO|1|0|A|2043
2OGO|1|0|G|2044
2OGO|1|0|A|2045
2OGO|1|0|C|2046
2OGO|1|0|C|2047
*
2OGO|1|0|G|2425
2OGO|1|0|G|2426
2OGO|1|0|A|2427
2OGO|1|0|U|2428
2OGO|1|0|A|2429
2OGO|1|0|A|2430
2OGO|1|0|C|2431
2OGO|1|0|A|2432
*
2OGO|1|0|U|2479
2OGO|1|0|C|2480
2OGO|1|0|G|2481
2OGO|1|0|A|2482
2OGO|1|0|U|2483
2OGO|1|0|G|2484
2OGO|1|0|U|2485
2OGO|1|0|C|2486
2OGO|1|0|G|2487
*
2OGO|1|0|U|2559
2OGO|1|0|G|2560
2OGO|1|0|G|2561
2OGO|1|0|G|2562
2OGO|1|0|U|2563
2OGO|1|0|U|2564
2OGO|1|0|C|2565
2OGO|1|0|A|2566
2OGO|1|0|G|2567
*
2OGO|1|0|C|2585
2OGO|1|0|G|2586
2OGO|1|0|G|2587
2OGO|1|0|U|2588
2OGO|1|0|C|2589
2OGO|1|0|U|2590

Current chains

Chain 0

23S ribosomal RNA

Nearby chains

Chain B

50S ribosomal protein L3