HL_5NDG_201

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

AUUUUGUUGGUUUCU

Length

15 nucleotides

Bulged bases

None detected

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

HL_5NDG_201 not in the Motif Atlas

Homologous match to HL_4V88_205

Geometric discrepancy: 0.1721

The information below is about HL_4V88_205

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_88364.1

Basepair signature

cWW-cWW-F-F-F-F-F-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

5NDG|1|6|A|829
5NDG|1|6|U|830
5NDG|1|6|U|831
5NDG|1|6|U|832
5NDG|1|6|U|833
5NDG|1|6|G|834
5NDG|1|6|U|835
5NDG|1|6|U|836
5NDG|1|6|G|837
5NDG|1|6|G|838
5NDG|1|6|U|839
5NDG|1|6|U|840
5NDG|1|6|U|841
5NDG|1|6|C|842
5NDG|1|6|U|843

Current chains

Chain 6

18S ribosomal RNA

Nearby chains

Chain c1

40S ribosomal protein S11-A