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
CGC*GGACUGC*GAGGAAGGAG
Length
20 nucleotides
Bulged bases
5FDU|1|2a|A|1183
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_5FDU_072 not in the Motif Atlas
Homologous match to J3_4LFB_018
Geometric discrepancy: 0.1235
The information below is about J3_4LFB_018
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_17791.2
Basepair signature
cWW-F-cHW-cWW-tWH-cWW-F-tSW-tWS-cSH-cWW-cWW
Number of instances in this motif group
2

Unit IDs

5FDU|1|2a|C|1116
5FDU|1|2a|G|1117
5FDU|1|2a|C|1118
*
5FDU|1|2a|G|1155
5FDU|1|2a|G|1156
5FDU|1|2a|A|1157
5FDU|1|2a|C|1158
5FDU|1|2a|U|1159
5FDU|1|2a|G|1160
5FDU|1|2a|C|1161
*
5FDU|1|2a|G|1175
5FDU|1|2a|A|1176
5FDU|1|2a|G|1177
5FDU|1|2a|G|1178
5FDU|1|2a|A|1179
5FDU|1|2a|A|1180
5FDU|1|2a|G|1181
5FDU|1|2a|G|1182
5FDU|1|2a|A|1183
5FDU|1|2a|G|1184

Current chains

Chain 2a
16S ribosomal RNA

Nearby chains

Chain 2b
30S ribosomal protein S2
Chain 2i
30S ribosomal protein S9
Chain 2n
30S ribosomal protein S14 type Z

Coloring options:


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