HL_5NDW_123

3D structure

PDB id

5NDW (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

AGUGAU

Length

6 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_5NDW_123 not in the Motif Atlas

Homologous match to HL_5TBW_010

Geometric discrepancy: 0.0901

The information below is about HL_5TBW_010

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_37824.2

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

360

Unit IDs

5NDW|1|5|A|357
5NDW|1|5|G|358
5NDW|1|5|U|359
5NDW|1|5|G|360
5NDW|1|5|A|361
5NDW|1|5|U|362

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain l4

60S ribosomal protein L4-A

Chain o7

60S ribosomal protein L37-A

Chain o9

60S ribosomal protein L39