IL_5NDW_177

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

UUGUCAG*CUUGGAUUUA

Length

17 nucleotides

Bulged bases

5NDW|1|2|G|913

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_177 not in the Motif Atlas

Homologous match to IL_8C3A_440

Geometric discrepancy: 0.3538

The information below is about IL_8C3A_440

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_22252.1

Basepair signature

cWW-L-R-L-R-L-R-L-R-L-R-L-cWW-L

Number of instances in this motif group

1

Unit IDs

5NDW|1|2|U|893
5NDW|1|2|U|894
5NDW|1|2|G|895
5NDW|1|2|U|896
5NDW|1|2|C|897
5NDW|1|2|A|898
5NDW|1|2|G|899
*
5NDW|1|2|C|910
5NDW|1|2|U|911
5NDW|1|2|U|912
5NDW|1|2|G|913
5NDW|1|2|G|914
5NDW|1|2|A|915
5NDW|1|2|U|916
5NDW|1|2|U|917
5NDW|1|2|U|918
5NDW|1|2|A|919

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain 1

Large subunit ribosomal RNA; LSU rRNA

Chain C4

40S ribosomal protein S14-B

Chain S1

40S ribosomal protein S1-A