J3_5NDW_090

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

CA*UAACU*AG

Length

9 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

J3_5NDW_090 not in the Motif Atlas

Homologous match to J3_8P9A_087

Geometric discrepancy: 0.1107

The information below is about J3_8P9A_087

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_05348.1

Basepair signature

cWW-cWW-cWW-F-F-F

Number of instances in this motif group

5

Unit IDs

5NDW|1|5|C|1631
5NDW|1|5|A|1632
*
5NDW|1|5|U|1641
5NDW|1|5|A|1642
5NDW|1|5|A|1643
5NDW|1|5|C|1644
5NDW|1|5|U|1645
*
5NDW|1|5|A|1810
5NDW|1|5|G|1811

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain n7

60S ribosomal protein L27-A

Chain o4

60S ribosomal protein L34-A