J4_5NDJ_010

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

GAC*GC*GG*CC

Length

9 nucleotides

Bulged bases

5NDJ|1|14|A|1494

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

J4_5NDJ_010 not in the Motif Atlas

Homologous match to J4_9DFE_006

Geometric discrepancy: 0.1848

The information below is about J4_9DFE_006

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_24280.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

5

Unit IDs

5NDJ|1|14|G|1493
5NDJ|1|14|A|1494
5NDJ|1|14|C|1495
*
5NDJ|1|14|G|1516
5NDJ|1|14|C|1517
*
5NDJ|1|14|G|1574
5NDJ|1|14|G|1575
*
5NDJ|1|14|C|1596
5NDJ|1|14|C|1597

Current chains

Chain 14

23S ribosomal RNA

Nearby chains