3D structure

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

Loop

Sequence
GGACG*CGGUAC
Length
11 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
IL_5FDU_134 not in the Motif Atlas
Geometric match to IL_6CZR_130
Geometric discrepancy: 0.1459
The information below is about IL_6CZR_130
Detailed Annotation
6x5 Sarcin-Ricin; G-bulge
Broad Annotation
Sarcin-Ricin; G-bulge
Motif group
IL_88269.3
Basepair signature
cWW-L-R-cSH-tWH-tHS-cWW
Number of instances in this motif group
4

Unit IDs

5FDU|1|1a|G|446
5FDU|1|1a|G|447
5FDU|1|1a|A|448
5FDU|1|1a|C|449
5FDU|1|1a|G|450
*
5FDU|1|1a|C|483
5FDU|1|1a|G|484
5FDU|1|1a|G|485
5FDU|1|1a|U|486
5FDU|1|1a|A|487
5FDU|1|1a|C|488

Current chains

Chain 1a
16S ribosomal RNA

Nearby chains

Chain 1d
30S ribosomal protein S4
Chain 1p
30S ribosomal protein S16

Coloring options:


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