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
CAUC*GUU*AUUAAAG
Length
14 nucleotides
Bulged bases
5FDV|1|1A|A|2530, 5FDV|1|1A|U|2531
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_5FDV_008 not in the Motif Atlas
Homologous match to J3_7RQB_012
Geometric discrepancy: 0.039
The information below is about J3_7RQB_012
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_32601.3
Basepair signature
cWW-tWH-cHW-tSH-cWW-tSS-F-cSS-cWW
Number of instances in this motif group
4

Unit IDs

5FDV|1|1A|C|2529
5FDV|1|1A|A|2530
5FDV|1|1A|U|2531
5FDV|1|1A|C|2532
*
5FDV|1|1A|G|2557
5FDV|1|1A|U|2558
5FDV|1|1A|U|2559
*
5FDV|1|1A|A|2573
5FDV|1|1A|U|2574
5FDV|1|1A|U|2575
5FDV|1|1A|A|2576
5FDV|1|1A|A|2577
5FDV|1|1A|A|2578
5FDV|1|1A|G|2579

Current chains

Chain 1A
23S ribosomal RNA

Nearby chains

Chain 1N
50S ribosomal protein L13
Chain 1O
50S ribosomal protein L14

Coloring options:


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