3D structure

PDB id
8CF5 (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 presence of sordarin
Experimental method
ELECTRON MICROSCOPY
Resolution
2.71 Å

Loop

Sequence
CUUGU*AAAUAAC*GGAAUG*CAAU*AUAG
Length
26 nucleotides
Bulged bases
8CF5|1|c|A|544
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_8CF5_007 not in the Motif Atlas
Homologous match to J5_8C3A_018
Geometric discrepancy: 0.0902
The information below is about J5_8C3A_018
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J5_19320.1
Basepair signature
cWW-F-F-F-F-F-cWW-cWW-cWH-F-cWW-F-F-cWW-F-cWW-cWW
Number of instances in this motif group
1

Unit IDs

8CF5|1|c|C|31
8CF5|1|c|U|32
8CF5|1|c|U|33
8CF5|1|c|G|34
8CF5|1|c|U|35
*
8CF5|1|c|A|473
8CF5|1|c|A|474
8CF5|1|c|A|475
8CF5|1|c|U|476
8CF5|1|c|A|477
8CF5|1|c|A|478
8CF5|1|c|C|479
*
8CF5|1|c|G|509
8CF5|1|c|G|510
8CF5|1|c|A|511
8CF5|1|c|A|512
8CF5|1|c|U|513
8CF5|1|c|G|514
*
8CF5|1|c|C|543
8CF5|1|c|A|544
8CF5|1|c|A|545
8CF5|1|c|U|546
*
8CF5|1|c|A|592
8CF5|1|c|U|593
8CF5|1|c|A|594
8CF5|1|c|G|595

Current chains

Chain c
18S ribosomal RNA

Nearby chains

Chain 6
40S ribosomal protein S30-A
Chain m
40S ribosomal protein S9-A
Chain z
40S ribosomal protein S23-A

Coloring options:


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