3D structure

PDB id
5NDK (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA
Experimental method
X-RAY DIFFRACTION
Resolution
2.95 Å

Loop

Sequence
CUUG*CAG*CUUACG
Length
13 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_5NDK_008 not in the Motif Atlas
Homologous match to J3_4LFB_005
Geometric discrepancy: 0.1693
The information below is about J3_4LFB_005
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_82572.1
Basepair signature
cWW-tSH-tWW-F-cWW-tHW-F-F-cWW
Number of instances in this motif group
2

Unit IDs

5NDK|1|13|C|1613
5NDK|1|13|U|1614
5NDK|1|13|U|1615
5NDK|1|13|G|1616
*
5NDK|1|13|C|1673
5NDK|1|13|A|1674
5NDK|1|13|G|1675
*
5NDK|1|13|C|1837
5NDK|1|13|U|1838
5NDK|1|13|U|1839
5NDK|1|13|A|1840
5NDK|1|13|C|1841
5NDK|1|13|G|1842

Current chains

Chain 13
16S ribosomal RNA

Nearby chains

Chain 5I
30S ribosomal protein S14 type Z

Coloring options:


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