3D structure

PDB id
8SYL (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM structure of the Escherichia coli 70S ribosome in complex with amikacin, mRNA, and A-, P-, and E-site tRNAs
Experimental method
ELECTRON MICROSCOPY
Resolution
2.9 Å

Loop

Sequence
UUUA*UUUG*CU*AG*CGGAUAAAA
Length
21 nucleotides
Bulged bases
8SYL|1|A|U|2076, 8SYL|1|A|G|2428, 8SYL|1|A|G|2429, 8SYL|1|A|A|2430, 8SYL|1|A|U|2431
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
J5_8SYL_006 not in the Motif Atlas
Homologous match to J5_9DFE_007
Geometric discrepancy: 0.0769
The information below is about J5_9DFE_007
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J5_39529.1
Basepair signature
cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW
Number of instances in this motif group
3

Unit IDs

8SYL|1|A|U|2074
8SYL|1|A|U|2075
8SYL|1|A|U|2076
8SYL|1|A|A|2077
*
8SYL|1|A|U|2243
8SYL|1|A|U|2244
8SYL|1|A|U|2245
8SYL|1|A|G|2246
*
8SYL|1|A|C|2258
8SYL|1|A|U|2259
*
8SYL|1|A|A|2281
8SYL|1|A|G|2282
*
8SYL|1|A|C|2427
8SYL|1|A|G|2428
8SYL|1|A|G|2429
8SYL|1|A|A|2430
8SYL|1|A|U|2431
8SYL|1|A|A|2432
8SYL|1|A|A|2433
8SYL|1|A|A|2434
8SYL|1|A|A|2435

Current chains

Chain A
23S Ribosomal RNA

Nearby chains

Chain 5
50S ribosomal protein L33
Chain 7
50S ribosomal protein L35
Chain C
50S ribosomal protein L2
Chain N
50S ribosomal protein L15
Chain Y
50S ribosomal protein L27
Chain Z
50S ribosomal protein L28
Chain y
Transfer RNA; tRNA

Coloring options:


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