IL_5NDJ_252

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)

Experimental method

X-RAY DIFFRACTION

Resolution

3.15 Å

Loop

Sequence

GGUG*CUC

Length

7 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_5NDJ_252 not in the Motif Atlas

Homologous match to IL_7A0S_019

Geometric discrepancy: 0.0805

The information below is about IL_7A0S_019

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

No text annotation

Motif group

IL_51387.2

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

20

Unit IDs

5NDJ|1|1H|G|787
5NDJ|1|1H|G|788
5NDJ|1|1H|U|789
5NDJ|1|1H|G|790
*
5NDJ|1|1H|C|805
5NDJ|1|1H|U|806
5NDJ|1|1H|C|807

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains