HL_5NDG_178

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

CCUUGUG

Length

7 nucleotides

Bulged bases

5NDG|1|5|U|3195, 5NDG|1|5|U|3198

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_178 not in the Motif Atlas

Geometric match to HL_5J7L_018

Geometric discrepancy: 0.2224

The information below is about HL_5J7L_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_37344.1

Basepair signature

cWW-F-F

Number of instances in this motif group

2

Unit IDs

5NDG|1|5|C|3193
5NDG|1|5|C|3194
5NDG|1|5|U|3195
5NDG|1|5|U|3196
5NDG|1|5|G|3197
5NDG|1|5|U|3198
5NDG|1|5|G|3199

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l9

60S ribosomal protein L9-A

Chain m4

60S ribosomal protein L14-A

Chain m6

60S ribosomal protein L16-A