3D structure

PDB id
5HCQ (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of antimicrobial peptide Oncocin d15-19 bound to the Thermus thermophilus 70S ribosome
Experimental method
X-RAY DIFFRACTION
Resolution
2.8 Å

Loop

Sequence
GUGCCAG*CGGUAAUAC
Length
16 nucleotides
Bulged bases
5HCQ|1|2a|A|516, 5HCQ|1|2a|U|518, 5HCQ|1|2a|A|519
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_5HCQ_307 not in the Motif Atlas
Geometric match to IL_4V88_415
Geometric discrepancy: 0.1401
The information below is about IL_4V88_415
Detailed Annotation
Kink-turn related
Broad Annotation
No text annotation
Motif group
IL_54177.1
Basepair signature
cWW-cSW-tWH-L-R-L-R-tHS-cWW
Number of instances in this motif group
5

Unit IDs

5HCQ|1|2a|G|499
5HCQ|1|2a|U|500
5HCQ|1|2a|G|501
5HCQ|1|2a|C|502
5HCQ|1|2a|C|503
5HCQ|1|2a|A|504
5HCQ|1|2a|G|505
*
5HCQ|1|2a|C|512
5HCQ|1|2a|G|513
5HCQ|1|2a|G|514
5HCQ|1|2a|U|515
5HCQ|1|2a|A|516
5HCQ|1|2a|A|517
5HCQ|1|2a|U|518
5HCQ|1|2a|A|519
5HCQ|1|2a|C|520

Current chains

Chain 2a
16S Ribosomal RNA

Nearby chains

Chain 2c
30S ribosomal protein S3
Chain 2d
30S ribosomal protein S4
Chain 2l
30S ribosomal protein S12

Coloring options:


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