3D structure

PDB id
8CKU (explore in PDB, NAKB, or RNA 3D Hub)
Description
Translocation intermediate 1 (TI-1*) of 80S S. cerevisiae ribosome with ligands and eEF2 in the absence of sordarin
Experimental method
ELECTRON MICROSCOPY
Resolution
3.11 Å

Loop

Sequence
CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG
Length
27 nucleotides
Bulged bases
8CKU|1|AA|U|719, 8CKU|1|AA|A|784, 8CKU|1|AA|G|785
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_8CKU_003 not in the Motif Atlas
Homologous match to J5_8P9A_012
Geometric discrepancy: 0.1316
The information below is about J5_8P9A_012
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J5_56629.1
Basepair signature
cWW-F-F-tSS-F-cWW-cWW-F-F-cWW-F-cWW-F-F-F-F-F-F
Number of instances in this motif group
3

Unit IDs

8CKU|1|AA|C|675
8CKU|1|AA|G|676
8CKU|1|AA|A|677
8CKU|1|AA|G|678
*
8CKU|1|AA|C|702
8CKU|1|AA|G|703
8CKU|1|AA|U|704
8CKU|1|AA|A|705
8CKU|1|AA|A|706
*
8CKU|1|AA|U|713
8CKU|1|AA|G|714
8CKU|1|AA|A|715
8CKU|1|AA|A|716
8CKU|1|AA|C|717
8CKU|1|AA|G|718
8CKU|1|AA|U|719
8CKU|1|AA|A|720
8CKU|1|AA|G|721
*
8CKU|1|AA|C|749
8CKU|1|AA|G|750
8CKU|1|AA|A|751
*
8CKU|1|AA|U|782
8CKU|1|AA|A|783
8CKU|1|AA|A|784
8CKU|1|AA|G|785
8CKU|1|AA|A|786
8CKU|1|AA|G|787

Current chains

Chain AA
25S ribosomal RNA

Nearby chains

Chain C
60S ribosomal protein L18-A
Chain GG
60S ribosomal protein L4-A
Chain M
60S ribosomal protein L28
Chain N
60S ribosomal protein L29
Chain OO
60S ribosomal protein L13-A
Chain U
60S ribosomal protein L36-A

Coloring options:


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