HL_5NDG_075

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

GCCUUGUGC

Length

9 nucleotides

Bulged bases

5NDG|1|2|U|277, 5NDG|1|2|U|280

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_075 not in the Motif Atlas

Homologous match to HL_8C3A_198

Geometric discrepancy: 0.5463

The information below is about HL_8C3A_198

Detailed Annotation

Mini UNCG

Broad Annotation

No text annotation

Motif group

HL_46878.1

Basepair signature

cWW-F

Number of instances in this motif group

30

Unit IDs

5NDG|1|2|G|274
5NDG|1|2|C|275
5NDG|1|2|C|276
5NDG|1|2|U|277
5NDG|1|2|U|278
5NDG|1|2|G|279
5NDG|1|2|U|280
5NDG|1|2|G|281
5NDG|1|2|C|282

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain N4

60S ribosomal protein L24-A

Chain S6

40S ribosomal protein S6-A