HL_5NDG_090

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

GAUCAGAUACC

Length

11 nucleotides

Bulged bases

5NDG|1|2|U|1004

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_090 not in the Motif Atlas

Homologous match to HL_4V88_208

Geometric discrepancy: 0.1224

The information below is about HL_4V88_208

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_75293.2

Basepair signature

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

Number of instances in this motif group

14

Unit IDs

5NDG|1|2|G|997
5NDG|1|2|A|998
5NDG|1|2|U|999
5NDG|1|2|C|1000
5NDG|1|2|A|1001
5NDG|1|2|G|1002
5NDG|1|2|A|1003
5NDG|1|2|U|1004
5NDG|1|2|A|1005
5NDG|1|2|C|1006
5NDG|1|2|C|1007

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 D6

40S ribosomal protein S26-B