IL_5OBM_152

3D structure

PDB id

5OBM (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of Gentamicin bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.4 Å

Loop

Sequence

UAUCAA*UUUCAACG

Length

14 nucleotides

Bulged bases

5OBM|1|2|U|313, 5OBM|1|2|C|351

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

IL_5OBM_152 not in the Motif Atlas

Homologous match to IL_4V88_402

Geometric discrepancy: 0.0756

The information below is about IL_4V88_402

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_45067.5

Basepair signature

cWW-tSH-tSS-tHS-R-cWW-cWW-R

Number of instances in this motif group

16

Unit IDs

5OBM|1|2|U|311
5OBM|1|2|A|312
5OBM|1|2|U|313
5OBM|1|2|C|314
5OBM|1|2|A|315
5OBM|1|2|A|316
*
5OBM|1|2|U|348
5OBM|1|2|U|349
5OBM|1|2|U|350
5OBM|1|2|C|351
5OBM|1|2|A|352
5OBM|1|2|A|353
5OBM|1|2|C|354
5OBM|1|2|G|355

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C1

40S ribosomal protein S11-A

Chain D3

40S ribosomal protein S23-A

Chain S8

40S ribosomal protein S8-A