IL_5NDG_177

3D structure

PDB id

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

Description

Crystal structure of geneticin (G418) bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

UUGUCAG*CUUGGAUUUA

Length

17 nucleotides

Bulged bases

5NDG|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_5NDG_177 not in the Motif Atlas

Homologous match to IL_8C3A_440

Geometric discrepancy: 0.3461

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

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

Chain S1

40S ribosomal protein S1-A