HL_5NDG_131

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

CCUCAG

Length

6 nucleotides

Bulged bases

5NDG|1|5|C|959, 5NDG|1|5|A|962

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_131 not in the Motif Atlas

Homologous match to HL_5TBW_022

Geometric discrepancy: 0.1839

The information below is about HL_5TBW_022

Detailed Annotation

Externally structured

Broad Annotation

Externally structured

Motif group

HL_96426.1

Basepair signature

cWW-F

Number of instances in this motif group

4

Unit IDs

5NDG|1|5|C|958
5NDG|1|5|C|959
5NDG|1|5|U|960
5NDG|1|5|C|961
5NDG|1|5|A|962
5NDG|1|5|G|963

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain n8

60S ribosomal protein L28

Chain n9

60S ribosomal protein L29

Chain q2

60S ribosomal protein L42-A