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
CUAG*CGAAG
Length
9 nucleotides
Bulged bases
5NDJ|1|14|A|1604
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_114 not in the Motif Atlas
Homologous match to IL_7RQB_057
Geometric discrepancy: 0.099
The information below is about IL_7RQB_057
Detailed Annotation
tSH-tHW
Broad Annotation
No text annotation
Motif group
IL_04059.1
Basepair signature
cWW-tWH-tHS-cWW
Number of instances in this motif group
13

Unit IDs

5NDJ|1|14|C|1486
5NDJ|1|14|U|1487
5NDJ|1|14|A|1488
5NDJ|1|14|G|1489
*
5NDJ|1|14|C|1601
5NDJ|1|14|G|1602
5NDJ|1|14|A|1603
5NDJ|1|14|A|1604
5NDJ|1|14|G|1605

Current chains

Chain 14
23S ribosomal RNA

Nearby chains

No other chains within 10Å

Coloring options:


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