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
CGAUAAA*UC*GCGC*GG
Length
15 nucleotides
Bulged bases
5FDU|1|2A|G|1271, 5FDU|1|2A|A|1272, 5FDU|1|2A|U|1273, 5FDU|1|2A|G|1647
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_016 not in the Motif Atlas
Homologous match to J4_9DFE_003
Geometric discrepancy: 0.0414
The information below is about J4_9DFE_003
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J4_64571.5
Basepair signature
cWW-F-cWW-tSS-cWW-F-cWW
Number of instances in this motif group
4

Unit IDs

5FDU|1|2A|C|1270
5FDU|1|2A|G|1271
5FDU|1|2A|A|1272
5FDU|1|2A|U|1273
5FDU|1|2A|A|1274
5FDU|1|2A|A|1275
5FDU|1|2A|A|1276
*
5FDU|1|2A|U|1294
5FDU|1|2A|C|1295
*
5FDU|1|2A|G|1645
5FDU|1|2A|C|1646
5FDU|1|2A|G|1647
5FDU|1|2A|C|1648
*
5FDU|1|2A|G|2009
5FDU|1|2A|G|2010

Current chains

Chain 2A
23S ribosomal RNA

Nearby chains

Chain 25
50S ribosomal protein L32
Chain 2R
50S ribosomal protein L17
Chain 2W
50S ribosomal protein L22

Coloring options:


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