HL_5NDG_091

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

UUUUUUAAUG

Length

10 nucleotides

Bulged bases

None detected

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_091 not in the Motif Atlas

Geometric match to HL_6UFG_007

Geometric discrepancy: 0.3395

The information below is about HL_6UFG_007

Detailed Annotation

tRNA anticodon loop

Broad Annotation

Anticodon loop

Motif group

HL_81376.2

Basepair signature

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

Number of instances in this motif group

42

Unit IDs

5NDG|1|2|U|1055
5NDG|1|2|U|1056
5NDG|1|2|U|1057
5NDG|1|2|U|1058
5NDG|1|2|U|1059
5NDG|1|2|U|1060
5NDG|1|2|A|1061
5NDG|1|2|A|1062
5NDG|1|2|U|1063
5NDG|1|2|G|1064

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain D7

40S ribosomal protein S27-A

Chain S1

40S ribosomal protein S1-A