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
CGAAG*CGCCAGAGAG*CGUAG
Length
20 nucleotides
Bulged bases
5FDU|1|2A|G|321
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_5FDU_059 not in the Motif Atlas
Homologous match to J3_9DFE_006
Geometric discrepancy: 0.0586
The information below is about J3_9DFE_006
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_46299.2
Basepair signature
cWW-F-F-F-cHH-cWW-tHS-F-cWW-cSW-tHS-cWW
Number of instances in this motif group
3

Unit IDs

5FDU|1|2A|C|297
5FDU|1|2A|G|298
5FDU|1|2A|A|299
5FDU|1|2A|A|300
5FDU|1|2A|G|301
*
5FDU|1|2A|C|316
5FDU|1|2A|G|317
5FDU|1|2A|C|318
5FDU|1|2A|C|319
5FDU|1|2A|A|320
5FDU|1|2A|G|321
5FDU|1|2A|A|322
5FDU|1|2A|G|323
5FDU|1|2A|A|324
5FDU|1|2A|G|325
*
5FDU|1|2A|C|337
5FDU|1|2A|G|338
5FDU|1|2A|U|339
5FDU|1|2A|A|340
5FDU|1|2A|G|341

Current chains

Chain 2A
23S ribosomal RNA

Nearby chains

Chain 2F
50S ribosomal protein L4
Chain 2Y
50S ribosomal protein L24

Coloring options:


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