3D structure

PDB id
8RJD (explore in PDB, NAKB, or RNA 3D Hub)
Description
Structure of the rabbit 80S ribosome stalled on a 2-TMD rhodopsin intermediate in complex with Sec61-TRAP, open conformation 2
Experimental method
ELECTRON MICROSCOPY
Resolution
2.78574 Å

Loop

Sequence
GGUAAACUCC
Length
10 nucleotides
Bulged bases
8RJD|1|K|G|315, 8RJD|1|K|U|316
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
HL_8RJD_009 not in the Motif Atlas
Homologous match to HL_8C3A_009
Geometric discrepancy: 0.1547
The information below is about HL_8C3A_009
Detailed Annotation
Pseudoknot geometry
Broad Annotation
No text annotation
Motif group
HL_15076.1
Basepair signature
cWW-F-F-F-F-F
Number of instances in this motif group
10

Unit IDs

8RJD|1|K|G|314
8RJD|1|K|G|315
8RJD|1|K|U|316
8RJD|1|K|A|317
8RJD|1|K|A|318
8RJD|1|K|A|319
8RJD|1|K|C|320
8RJD|1|K|U|321
8RJD|1|K|C|322
8RJD|1|K|C|323

Current chains

Chain K
28S rRNA

Nearby chains

Chain L
60S ribosomal protein L13
Chain N
Ribosomal protein L15
Chain a
60S ribosomal protein L27a
Chain i
60S ribosomal protein L36
Chain o
60S ribosomal protein L36a-like

Coloring options:


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