IL_5NDV_174

3D structure

PDB id

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

Description

Crystal structure of Paromomycin bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

UUGUCAG*CUUGGAUUUA

Length

17 nucleotides

Bulged bases

5NDV|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_5NDV_174 not in the Motif Atlas

Homologous match to IL_8C3A_440

Geometric discrepancy: 0.2974

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

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