IL_5NDG_148

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

AGAUAAAAAAUCAAG*CAU

Length

18 nucleotides

Bulged bases

5NDG|1|2|A|217

QA status

Missing nucleotides

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_148 not in the Motif Atlas

Geometric match to IL_7RQB_082

Geometric discrepancy: 0.1613

The information below is about IL_7RQB_082

Detailed Annotation

Isolated tHS basepair with bulges

Broad Annotation

No text annotation

Motif group

IL_38958.7

Basepair signature

cWW-tHS-cWW

Number of instances in this motif group

15

Unit IDs

5NDG|1|2|A|213
5NDG|1|2|G|214
5NDG|1|2|A|215
5NDG|1|2|U|216
5NDG|1|2|A|217
5NDG|1|2|A|218
5NDG|1|2|A|219
5NDG|1|2|A|220
5NDG|1|2|A|221
5NDG|1|2|A|222
5NDG|1|2|U|223
5NDG|1|2|C|224
5NDG|1|2|A|225
5NDG|1|2|A|226
5NDG|1|2|G|243
*
5NDG|1|2|C|250
5NDG|1|2|A|251
5NDG|1|2|U|252

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C1

40S ribosomal protein S11-A

Chain S4

40S ribosomal protein S4-A

Chain S8

40S ribosomal protein S8-A