J5_2OGO_006

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

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

2OGO|1|0|U|2059, 2OGO|1|0|G|2407, 2OGO|1|0|G|2408, 2OGO|1|0|A|2409, 2OGO|1|0|U|2410

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_006 not in the Motif Atlas

Homologous match to J5_7A0S_007

Geometric discrepancy: 0.1467

The information below is about J5_7A0S_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.2

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

2OGO|1|0|U|2057
2OGO|1|0|U|2058
2OGO|1|0|U|2059
2OGO|1|0|A|2060
*
2OGO|1|0|U|2222
2OGO|1|0|U|2223
2OGO|1|0|U|2224
2OGO|1|0|G|2225
*
2OGO|1|0|C|2237
2OGO|1|0|G|2238
*
2OGO|1|0|C|2260
2OGO|1|0|G|2261
*
2OGO|1|0|C|2406
2OGO|1|0|G|2407
2OGO|1|0|G|2408
2OGO|1|0|A|2409
2OGO|1|0|U|2410
2OGO|1|0|A|2411
2OGO|1|0|A|2412
2OGO|1|0|A|2413
2OGO|1|0|A|2414

Current chains

Chain 0

23S ribosomal RNA

Nearby chains