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*CGCC*GAG*CGUAG
Length
17 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
J4_5FDU_002 not in the Motif Atlas
Homologous match to J4_9DFE_002
Geometric discrepancy: 0.0429
The information below is about J4_9DFE_002
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J4_71729.5
Basepair signature
cWW-tSH-cHH-F-F-tHS-cWW-cWW-F-F-cWW
Number of instances in this motif group
4

Unit IDs

5FDU|1|1A|C|321
5FDU|1|1A|G|322
5FDU|1|1A|A|323
5FDU|1|1A|A|324
5FDU|1|1A|G|325
*
5FDU|1|1A|C|340
5FDU|1|1A|G|341
5FDU|1|1A|C|342
5FDU|1|1A|C|343
*
5FDU|1|1A|G|347
5FDU|1|1A|A|348
5FDU|1|1A|G|349
*
5FDU|1|1A|C|361
5FDU|1|1A|G|362
5FDU|1|1A|U|363
5FDU|1|1A|A|364
5FDU|1|1A|G|365

Current chains

Chain 1A
23S ribosomal RNA

Nearby chains

Chain 1F
50S ribosomal protein L4
Chain 1Y
50S ribosomal protein L24

Coloring options:


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