IL_5NDW_459

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

GAU*AUUU

Length

7 nucleotides

Bulged bases

5NDW|1|1|U|776

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_5NDW_459 not in the Motif Atlas

Geometric match to IL_4E59_001

Geometric discrepancy: 0.2645

The information below is about IL_4E59_001

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_01003.1

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

174

Unit IDs

5NDW|1|1|G|754
5NDW|1|1|A|755
5NDW|1|1|U|756
*
5NDW|1|1|A|775
5NDW|1|1|U|776
5NDW|1|1|U|777
5NDW|1|1|U|778

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain M8

60S ribosomal protein L18-A

Chain N8

60S ribosomal protein L28

Chain N9

60S ribosomal protein L29