HL_5NDG_041

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

CUUCGG

Length

6 nucleotides

Bulged bases

5NDG|1|1|U|1925

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_041 not in the Motif Atlas

Geometric match to HL_7RQB_042

Geometric discrepancy: 0.0815

The information below is about HL_7RQB_042

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_03562.2

Basepair signature

cWW-tSW-F

Number of instances in this motif group

56

Unit IDs

5NDG|1|1|C|1923
5NDG|1|1|U|1924
5NDG|1|1|U|1925
5NDG|1|1|C|1926
5NDG|1|1|G|1927
5NDG|1|1|G|1928

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain 2

Small subunit ribosomal RNA; SSU rRNA

Chain Q1

60S ribosomal protein L41-A

Chain Q3

60S ribosomal protein L43-A