3D structure

PDB id
5I4L (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of Amicoumacin A bound to the yeast 80S ribosome
Experimental method
X-RAY DIFFRACTION
Resolution
3.1 Å

Loop

Sequence
AUGAAAAGAAC*GAGUGAAAAAGUACG*CU
Length
28 nucleotides
Bulged bases
5I4L|1|5|A|398, 5I4L|1|5|A|402
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_5I4L_080 not in the Motif Atlas
Homologous match to J3_8P9A_047
Geometric discrepancy: 0.0338
The information below is about J3_8P9A_047
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_92134.2
Basepair signature
cWW-cWW-cWW-F-tWH-cSS-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-cSW-F-tHS-cWW
Number of instances in this motif group
6

Unit IDs

5I4L|1|5|A|369
5I4L|1|5|U|370
5I4L|1|5|G|371
5I4L|1|5|A|372
5I4L|1|5|A|373
5I4L|1|5|A|374
5I4L|1|5|A|375
5I4L|1|5|G|376
5I4L|1|5|A|377
5I4L|1|5|A|378
5I4L|1|5|C|379
*
5I4L|1|5|G|390
5I4L|1|5|A|391
5I4L|1|5|G|392
5I4L|1|5|U|393
5I4L|1|5|G|394
5I4L|1|5|A|395
5I4L|1|5|A|396
5I4L|1|5|A|397
5I4L|1|5|A|398
5I4L|1|5|A|399
5I4L|1|5|G|400
5I4L|1|5|U|401
5I4L|1|5|A|402
5I4L|1|5|C|403
5I4L|1|5|G|404
*
5I4L|1|8|C|19
5I4L|1|8|U|20

Current chains

Chain 5
25S ribosomal RNA
Chain 8
5.8S ribosomal RNA

Nearby chains

Chain l4
60S ribosomal protein L4-A
Chain m7
60S ribosomal protein L17-A
Chain n6
60S ribosomal protein L26-A
Chain o9
60S ribosomal protein L39

Coloring options:


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