J5_9PKG_004

3D structure

PDB id

9PKG (explore in PDB, NAKB, or RNA 3D Hub)

Description

In situ human P state 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

3.26 Å

Loop

Sequence

AAGAAGACC*(OMG)GAUAACUG*CUU(5MC)GAUGUC*GG(UR3)U(PSU)AG*(PSU)AGUUUU

Length

42 nucleotides

Bulged bases

9PKG|1|L5|A|3908, 9PKG|1|L5|A|4394, 9PKG|1|L5|G|4451, 9PKG|1|L5|U|4555, 9PKG|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

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

Chain Pt

Transfer RNA; tRNA