HL_5NDG_082

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

AAUGUAAAUACCU

Length

13 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_082 not in the Motif Atlas

Geometric match to HL_4V88_199

Geometric discrepancy: 0.0901

The information below is about HL_4V88_199

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_05304.1

Basepair signature

cWW-cWW-F-F-tSH-F-F-F-F-F

Number of instances in this motif group

5

Unit IDs

5NDG|1|2|A|520
5NDG|1|2|A|521
5NDG|1|2|U|522
5NDG|1|2|G|523
5NDG|1|2|U|524
5NDG|1|2|A|525
5NDG|1|2|A|526
5NDG|1|2|A|527
5NDG|1|2|U|528
5NDG|1|2|A|529
5NDG|1|2|C|530
5NDG|1|2|C|531
5NDG|1|2|U|532

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain D4

40S ribosomal protein S24-A

Chain S4

40S ribosomal protein S4-A

Chain S9

40S ribosomal protein S9-A