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
G(PSU)GCCAG*CGGUAAUAC
Length
16 nucleotides
Bulged bases
5DOX|1|1a|A|532, 5DOX|1|1a|U|534
QA status
Modified nucleotides: PSU

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_138 not in the Motif Atlas
Homologous match to IL_4LFB_021
Geometric discrepancy: 0.1425
The information below is about IL_4LFB_021
Detailed Annotation
Kink-turn related
Broad Annotation
No text annotation
Motif group
IL_54177.4
Basepair signature
cWW-cSW-tWH-L-R-L-R-tHS-cWW
Number of instances in this motif group
4

Unit IDs

5DOX|1|1a|G|515
5DOX|1|1a|PSU|516
5DOX|1|1a|G|517
5DOX|1|1a|C|518
5DOX|1|1a|C|519
5DOX|1|1a|A|520
5DOX|1|1a|G|521
*
5DOX|1|1a|C|528
5DOX|1|1a|G|529
5DOX|1|1a|G|530
5DOX|1|1a|U|531
5DOX|1|1a|A|532
5DOX|1|1a|A|533
5DOX|1|1a|U|534
5DOX|1|1a|A|535
5DOX|1|1a|C|536

Current chains

Chain 1a
16S Ribosomal RNA

Nearby chains

Chain 1c
30S ribosomal protein S3
Chain 1d
30S ribosomal protein S4
Chain 1l
30S ribosomal protein S12

Coloring options:


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