IL_5NDW_344

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

UAAUU*ACCA

Length

9 nucleotides

Bulged bases

5NDW|1|5|C|3092

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_344 not in the Motif Atlas

Homologous match to IL_5TBW_117

Geometric discrepancy: 0.0846

The information below is about IL_5TBW_117

Detailed Annotation

Major groove minor groove platform with tHH

Broad Annotation

No text annotation

Motif group

IL_14592.1

Basepair signature

cWW-tHH-cWW-L-L

Number of instances in this motif group

4

Unit IDs

5NDW|1|5|U|3047
5NDW|1|5|A|3048
5NDW|1|5|A|3049
5NDW|1|5|U|3050
5NDW|1|5|U|3051
*
5NDW|1|5|A|3091
5NDW|1|5|C|3092
5NDW|1|5|C|3093
5NDW|1|5|A|3094

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l3

60S ribosomal protein L3

Chain n3

60S ribosomal protein L23-A

Chain n4

60S ribosomal protein L24-A