J5_9PKD_004
3D structure
- PDB id
- 9PKD (explore in PDB, NAKB, or RNA 3D Hub)
- Description
- In situ CHX and HHT treated 80S consensus ribosome
- Experimental method
- ELECTRON MICROSCOPY
- Resolution
- 2.42 Å
Loop
- Sequence
- AAGAAGACC*(OMG)GAUAACUG*CUU(5MC)GAUGUC*GG(UR3)U(PSU)AG*(PSU)AGUUUU
- Length
- 42 nucleotides
- Bulged bases
- 9PKD|1|L5|A|3908, 9PKD|1|L5|A|4394, 9PKD|1|L5|G|4451, 9PKD|1|L5|U|4555, 9PKD|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
9PKD|1|L5|A|3902
9PKD|1|L5|A|3903
9PKD|1|L5|G|3904
9PKD|1|L5|A|3905
9PKD|1|L5|A|3906
9PKD|1|L5|G|3907
9PKD|1|L5|A|3908
9PKD|1|L5|C|3909
9PKD|1|L5|C|3910
*
9PKD|1|L5|OMG|4392
9PKD|1|L5|G|4393
9PKD|1|L5|A|4394
9PKD|1|L5|U|4395
9PKD|1|L5|A|4396
9PKD|1|L5|A|4397
9PKD|1|L5|C|4398
9PKD|1|L5|U|4399
9PKD|1|L5|G|4400
*
9PKD|1|L5|C|4444
9PKD|1|L5|U|4445
9PKD|1|L5|U|4446
9PKD|1|L5|5MC|4447
9PKD|1|L5|G|4448
9PKD|1|L5|A|4449
9PKD|1|L5|U|4450
9PKD|1|L5|G|4451
9PKD|1|L5|U|4452
9PKD|1|L5|C|4453
*
9PKD|1|L5|G|4528
9PKD|1|L5|G|4529
9PKD|1|L5|UR3|4530
9PKD|1|L5|U|4531
9PKD|1|L5|PSU|4532
9PKD|1|L5|A|4533
9PKD|1|L5|G|4534
*
9PKD|1|L5|PSU|4552
9PKD|1|L5|A|4553
9PKD|1|L5|G|4554
9PKD|1|L5|U|4555
9PKD|1|L5|U|4556
9PKD|1|L5|U|4557
9PKD|1|L5|U|4558
Current chains
- Chain L5
- 28S rRNA
Nearby chains
- Chain LA
- 60S ribosomal protein L8
- Chain LB
- Large ribosomal subunit protein uL3
- Chain LC
- 60S ribosomal protein L4
- Chain LI
- Ribosomal protein uL16-like
- Chain Lb
- Large ribosomal subunit protein eL29
Coloring options: