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
GUAGU(A2M)(OMG)C*GCGAAAC
Length
15 nucleotides
Bulged bases
None detected
QA status
Modified nucleotides: A2M, OMG

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
IL_8CF5_064 not in the Motif Atlas
Geometric match to IL_4V9F_012
Geometric discrepancy: 0.2602
The information below is about IL_4V9F_012
Detailed Annotation
8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge
Broad Annotation
Sarcin-Ricin; G-bulge
Motif group
IL_59724.1
Basepair signature
cWW-L-R-L-R-cSH-tWH-tHS-R-L-cWW
Number of instances in this motif group
1

Unit IDs

8CF5|1|AA|G|1444
8CF5|1|AA|U|1445
8CF5|1|AA|A|1446
8CF5|1|AA|G|1447
8CF5|1|AA|U|1448
8CF5|1|AA|A2M|1449
8CF5|1|AA|OMG|1450
8CF5|1|AA|C|1451
*
8CF5|1|AA|G|2353
8CF5|1|AA|C|2354
8CF5|1|AA|G|2355
8CF5|1|AA|A|2356
8CF5|1|AA|A|2357
8CF5|1|AA|A|2358
8CF5|1|AA|C|2359

Current chains

Chain AA
25S ribosomal RNA

Nearby chains

Chain B
60S ribosomal protein L17-A
Chain CC
5.8S ribosomal RNA; 5.8S rRNA
Chain GG
60S ribosomal protein L4-A

Coloring options:


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