J5_8CDR_005
3D structure
- PDB id
- 8CDR (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.04 Å
Loop
- Sequence
- AGAAGACC*(OMG)GAUAACUG*CUU(5MC)GAUGUC*GGUUUAG*UAGUUU
- Length
- 40 nucleotides
- Bulged bases
- 8CDR|1|AA|A|2404, 8CDR|1|AA|A|2817, 8CDR|1|AA|U|2873, 8CDR|1|AA|G|2874, 8CDR|1|AA|U|2978, 8CDR|1|AA|U|2979
- QA status
- Modified nucleotides: OMG, 5MC
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
- Detailed Annotation
- No text annotation
- Broad Annotation
- No text annotation
- Motif group
- Not in a motif group
- Basepair signature
- Not available
- Number of instances in this motif group
- 0
Unit IDs
8CDR|1|AA|A|2399
8CDR|1|AA|G|2400
8CDR|1|AA|A|2401
8CDR|1|AA|A|2402
8CDR|1|AA|G|2403
8CDR|1|AA|A|2404
8CDR|1|AA|C|2405
8CDR|1|AA|C|2406
*
8CDR|1|AA|OMG|2815
8CDR|1|AA|G|2816
8CDR|1|AA|A|2817
8CDR|1|AA|U|2818
8CDR|1|AA|A|2819
8CDR|1|AA|A|2820
8CDR|1|AA|C|2821
8CDR|1|AA|U|2822
8CDR|1|AA|G|2823
*
8CDR|1|AA|C|2867
8CDR|1|AA|U|2868
8CDR|1|AA|U|2869
8CDR|1|AA|5MC|2870
8CDR|1|AA|G|2871
8CDR|1|AA|A|2872
8CDR|1|AA|U|2873
8CDR|1|AA|G|2874
8CDR|1|AA|U|2875
8CDR|1|AA|C|2876
*
8CDR|1|AA|G|2951
8CDR|1|AA|G|2952
8CDR|1|AA|U|2953
8CDR|1|AA|U|2954
8CDR|1|AA|U|2955
8CDR|1|AA|A|2956
8CDR|1|AA|G|2957
*
8CDR|1|AA|U|2975
8CDR|1|AA|A|2976
8CDR|1|AA|G|2977
8CDR|1|AA|U|2978
8CDR|1|AA|U|2979
8CDR|1|AA|U|2980
Current chains
- Chain AA
- 25S ribosomal RNA
Nearby chains
- Chain B
- 60S ribosomal protein L17-A
- Chain Bb
- Transfer RNA; tRNA
- Chain EE
- 60S ribosomal protein L2-A
- Chain FF
- 60S ribosomal protein L3
- Chain GG
- 60S ribosomal protein L4-A
- Chain MM
- 60S ribosomal protein L10
- Chain N
- 60S ribosomal protein L29
- Chain Pp
- dipeptide
Coloring options: