HL_5OBM_240

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

AUUGAGAGCU

Length

10 nucleotides

Bulged bases

5OBM|1|2|G|1243, 5OBM|1|2|G|1245

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

HL_5OBM_240 not in the Motif Atlas

Homologous match to HL_8CRE_217

Geometric discrepancy: 0.2156

The information below is about HL_8CRE_217

Detailed Annotation

GNRA wlth extra near cWW

Broad Annotation

GNRA wlth extra near cWW

Motif group

HL_98423.3

Basepair signature

cWW-tSH-F-F-F-F

Number of instances in this motif group

15

Unit IDs

5OBM|1|2|A|1238
5OBM|1|2|U|1239
5OBM|1|2|U|1240
5OBM|1|2|G|1241
5OBM|1|2|A|1242
5OBM|1|2|G|1243
5OBM|1|2|A|1244
5OBM|1|2|G|1245
5OBM|1|2|C|1246
5OBM|1|2|U|1247

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain 1

Large subunit ribosomal RNA; LSU rRNA

Chain C5

40S ribosomal protein S15

Chain D9

40S ribosomal protein S29-A

Chain E1

Ubiquitin-40S ribosomal protein S31