3D structure

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

Loop

Sequence
GAGUG*CUC
Length
8 nucleotides
Bulged bases
5FDV|1|2A|A|1088
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_5FDV_218 not in the Motif Atlas
Geometric match to IL_5B2P_002
Geometric discrepancy: 0.3721
The information below is about IL_5B2P_002
Detailed Annotation
Isolated non-canonical cWW pair
Broad Annotation
No text annotation
Motif group
IL_07785.1
Basepair signature
cWW-cWW-cWW
Number of instances in this motif group
33

Unit IDs

5FDV|1|2A|G|1087
5FDV|1|2A|A|1088
5FDV|1|2A|G|1089
5FDV|1|2A|U|1090
5FDV|1|2A|G|1091
*
5FDV|1|2A|C|1100
5FDV|1|2A|U|1101
5FDV|1|2A|C|1102

Current chains

Chain 2A
23S ribosomal RNA

Nearby chains

Chain 29
50S ribosomal protein L36
Chain 2Q
50S ribosomal protein L16

Coloring options:


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