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
UUG*CG*CCUAAGGUAG*CGAAAA
Length
21 nucleotides
Bulged bases
5FDU|1|1A|A|1993
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_008 not in the Motif Atlas
Homologous match to J4_9DFE_008
Geometric discrepancy: 0.0452
The information below is about J4_9DFE_008
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J4_93343.1
Basepair signature
cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F
Number of instances in this motif group
4

Unit IDs

5FDU|1|1A|U|1864
5FDU|1|1A|U|1865
5FDU|1|1A|G|1866
*
5FDU|1|1A|C|1927
5FDU|1|1A|G|1928
*
5FDU|1|1A|C|1946
5FDU|1|1A|C|1947
5FDU|1|1A|U|1948
5FDU|1|1A|A|1949
5FDU|1|1A|A|1950
5FDU|1|1A|G|1951
5FDU|1|1A|G|1952
5FDU|1|1A|U|1953
5FDU|1|1A|A|1954
5FDU|1|1A|G|1955
*
5FDU|1|1A|C|1989
5FDU|1|1A|G|1990
5FDU|1|1A|A|1991
5FDU|1|1A|A|1992
5FDU|1|1A|A|1993
5FDU|1|1A|A|1994

Current chains

Chain 1A
23S ribosomal RNA

Nearby chains

Chain 1D
50S ribosomal protein L2
Chain 1a
Small subunit ribosomal RNA; SSU rRNA

Coloring options:


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