J5_9VXN_004
3D structure
- PDB id
- 9VXN (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- Human cytosolic ribosome in a rotated state, with multiple neomycin molecules bound, featuring A/P-site and P/E-site tRNAs
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.51 Å
Loop
- Sequence
- AGAAGACC*(OMG)GAUAACUG*CUU(5MC)GAUGUC*GG(UR3)U(PSU)AG*(PSU)AGUUU
- Length
- 40 nucleotides
- Bulged bases
- 9VXN|1|L5|A|3908, 9VXN|1|L5|A|4394, 9VXN|1|L5|U|4395, 9VXN|1|L5|G|4451, 9VXN|1|L5|U|4555, 9VXN|1|L5|U|4556
- QA status
- Modified nucleotides: OMG, 5MC, UR3, PSU
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
9VXN|1|L5|A|3903
9VXN|1|L5|G|3904
9VXN|1|L5|A|3905
9VXN|1|L5|A|3906
9VXN|1|L5|G|3907
9VXN|1|L5|A|3908
9VXN|1|L5|C|3909
9VXN|1|L5|C|3910
*
9VXN|1|L5|OMG|4392
9VXN|1|L5|G|4393
9VXN|1|L5|A|4394
9VXN|1|L5|U|4395
9VXN|1|L5|A|4396
9VXN|1|L5|A|4397
9VXN|1|L5|C|4398
9VXN|1|L5|U|4399
9VXN|1|L5|G|4400
*
9VXN|1|L5|C|4444
9VXN|1|L5|U|4445
9VXN|1|L5|U|4446
9VXN|1|L5|5MC|4447
9VXN|1|L5|G|4448
9VXN|1|L5|A|4449
9VXN|1|L5|U|4450
9VXN|1|L5|G|4451
9VXN|1|L5|U|4452
9VXN|1|L5|C|4453
*
9VXN|1|L5|G|4528
9VXN|1|L5|G|4529
9VXN|1|L5|UR3|4530
9VXN|1|L5|U|4531
9VXN|1|L5|PSU|4532
9VXN|1|L5|A|4533
9VXN|1|L5|G|4534
*
9VXN|1|L5|PSU|4552
9VXN|1|L5|A|4553
9VXN|1|L5|G|4554
9VXN|1|L5|U|4555
9VXN|1|L5|U|4556
9VXN|1|L5|U|4557
Current chains
- Chain L5
- 28S rRNA
Nearby chains
- Chain LA
- Large ribosomal subunit protein uL2
- Chain LB
- Large ribosomal subunit protein uL3
- Chain LC
- Large ribosomal subunit protein uL4
- Chain Lb
- Large ribosomal subunit protein eL29
- Chain u
- Transfer RNA; tRNA
Coloring options: