Loop J5_9PKB

3D structure

PDB id: 9PKB (explore in PDB, NAKB, or RNA 3D Hub)
Description: In situ HHT and CHX treated human hibernating state 80S ribosome
Experimental method: ELECTRON MICROSCOPY
Resolution: 3.05 Å

Loop

Sequence: AAGAAGACC*(OMG)GAUAACUG*CUU(5MC)GAUGUC*GG(UR3)U(PSU)AG*(PSU)AGUUUU
Length: 42 nucleotides
Bulged bases: 9PKB|1|L5|A|3908, 9PKB|1|L5|A|4394, 9PKB|1|L5|G|4451, 9PKB|1|L5|U|4555, 9PKB|1|L5|U|4556
QA status: Modified nucleotides: OMG, 5MC, UR3, PSU

Sequence variability

R3DSVS

Structural variability across Equivalence Class

R3DMCS EC

Structural variability across Rfam

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

9PKB|1|L5|A|3902
9PKB|1|L5|A|3903
9PKB|1|L5|G|3904
9PKB|1|L5|A|3905
9PKB|1|L5|A|3906
9PKB|1|L5|G|3907
9PKB|1|L5|A|3908
9PKB|1|L5|C|3909
9PKB|1|L5|C|3910
*
9PKB|1|L5|OMG|4392
9PKB|1|L5|G|4393
9PKB|1|L5|A|4394
9PKB|1|L5|U|4395
9PKB|1|L5|A|4396
9PKB|1|L5|A|4397
9PKB|1|L5|C|4398
9PKB|1|L5|U|4399
9PKB|1|L5|G|4400
*
9PKB|1|L5|C|4444
9PKB|1|L5|U|4445
9PKB|1|L5|U|4446
9PKB|1|L5|5MC|4447
9PKB|1|L5|G|4448
9PKB|1|L5|A|4449
9PKB|1|L5|U|4450
9PKB|1|L5|G|4451
9PKB|1|L5|U|4452
9PKB|1|L5|C|4453
*
9PKB|1|L5|G|4528
9PKB|1|L5|G|4529
9PKB|1|L5|UR3|4530
9PKB|1|L5|U|4531
9PKB|1|L5|PSU|4532
9PKB|1|L5|A|4533
9PKB|1|L5|G|4534
*
9PKB|1|L5|PSU|4552
9PKB|1|L5|A|4553
9PKB|1|L5|G|4554
9PKB|1|L5|U|4555
9PKB|1|L5|U|4556
9PKB|1|L5|U|4557
9PKB|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 Lb: Large ribosomal subunit protein eL29

J5_9PKB_004