3D structure

PDB id
5DOX (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of the Thermus thermophilus 70S ribosome in complex with Hygromycin-A at 3.1A resolution
Experimental method
X-RAY DIFFRACTION
Resolution
3.1 Å

Loop

Sequence
CGAAA(5MU)UC(5MC)UUG*C(5MC)UG
Length
16 nucleotides
Bulged bases
5DOX|1|1A|A|1938, 5DOX|1|1A|U|1944, 5DOX|1|1A|U|1963
QA status
Modified nucleotides: 5MU, 5MC

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_5DOX_074 not in the Motif Atlas
Homologous match to IL_7RQB_077
Geometric discrepancy: 0.0544
The information below is about IL_7RQB_077
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
Not in a motif group
Basepair signature
Not available
Number of instances in this motif group
0

Unit IDs

5DOX|1|1A|C|1934
5DOX|1|1A|G|1935
5DOX|1|1A|A|1936
5DOX|1|1A|A|1937
5DOX|1|1A|A|1938
5DOX|1|1A|5MU|1939
5DOX|1|1A|U|1940
5DOX|1|1A|C|1941
5DOX|1|1A|5MC|1942
5DOX|1|1A|U|1943
5DOX|1|1A|U|1944
5DOX|1|1A|G|1945
*
5DOX|1|1A|C|1961
5DOX|1|1A|5MC|1962
5DOX|1|1A|U|1963
5DOX|1|1A|G|1964

Current chains

Chain 1A
23S Ribosomal RNA

Nearby chains

Chain 1D
50S ribosomal protein L2
Chain 1a
Small subunit ribosomal RNA; SSU rRNA

Coloring options:


Copyright 2025 BGSU RNA group. Page generated in 0.8416 s