IL_5NDG_186

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

ACCA*UCCCU

Length

9 nucleotides

Bulged bases

5NDG|1|2|C|1158, 5NDG|1|2|C|1159

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_186 not in the Motif Atlas

Homologous match to IL_4V88_443

Geometric discrepancy: 0.1468

The information below is about IL_4V88_443

Detailed Annotation

C-loop

Broad Annotation

No text annotation

Motif group

IL_63596.9

Basepair signature

cWW-cWS-cHS-L-cWW-tWH

Number of instances in this motif group

15

Unit IDs

5NDG|1|2|A|1157
5NDG|1|2|C|1158
5NDG|1|2|C|1159
5NDG|1|2|A|1160
*
5NDG|1|2|U|1617
5NDG|1|2|C|1618
5NDG|1|2|C|1619
5NDG|1|2|C|1620
5NDG|1|2|U|1621

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C6

40S ribosomal protein S16-A

Chain D8

40S ribosomal protein S28-A

Chain S5

40S ribosomal protein S5