IL_5NDW_253

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

CUGAUG*CGGAUG

Length

12 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

IL_5NDW_253 not in the Motif Atlas

Geometric match to IL_5TBW_026

Geometric discrepancy: 0.0917

The information below is about IL_5TBW_026

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_82488.1

Basepair signature

cWW-tSH-tSH-tHS-cWW-cWW

Number of instances in this motif group

7

Unit IDs

5NDW|1|5|C|758
5NDW|1|5|U|759
5NDW|1|5|G|760
5NDW|1|5|A|761
5NDW|1|5|U|762
5NDW|1|5|G|763
*
5NDW|1|5|C|768
5NDW|1|5|G|769
5NDW|1|5|G|770
5NDW|1|5|A|771
5NDW|1|5|U|772
5NDW|1|5|G|773

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain m3

60S ribosomal protein L13-A

Chain n8

60S ribosomal protein L28

Chain q2

60S ribosomal protein L42-A