IL_5OBM_301

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

CCC*GUGCG

Length

8 nucleotides

Bulged bases

5OBM|1|5|C|1779

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_301 not in the Motif Atlas

Geometric match to IL_1U6B_001

Geometric discrepancy: 0.266

The information below is about IL_1U6B_001

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_42997.5

Basepair signature

cWW-L-R-cWW

Number of instances in this motif group

23

Unit IDs

5OBM|1|5|C|1669
5OBM|1|5|C|1670
5OBM|1|5|C|1671
*
5OBM|1|5|G|1776
5OBM|1|5|U|1777
5OBM|1|5|G|1778
5OBM|1|5|C|1779
5OBM|1|5|G|1780

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain m9

60S ribosomal protein L19-A

Chain o4

60S ribosomal protein L34-A