J5_8IFD_004

3D structure

PDB id

8IFD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Dibekacin-added human 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

2.59 Å

Loop

Sequence

AGAAGACC*GGAUAACUG*CUUCGAUGUC*GGUUUAG*UAGUUU

Length

40 nucleotides

Bulged bases

8IFD|1|1A|A|3908, 8IFD|1|1A|A|4394, 8IFD|1|1A|G|4451, 8IFD|1|1A|U|4452, 8IFD|1|1A|U|4555, 8IFD|1|1A|U|4556

QA status

Valid loop

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

8IFD|1|1A|A|3903
8IFD|1|1A|G|3904
8IFD|1|1A|A|3905
8IFD|1|1A|A|3906
8IFD|1|1A|G|3907
8IFD|1|1A|A|3908
8IFD|1|1A|C|3909
8IFD|1|1A|C|3910
*
8IFD|1|1A|G|4392
8IFD|1|1A|G|4393
8IFD|1|1A|A|4394
8IFD|1|1A|U|4395
8IFD|1|1A|A|4396
8IFD|1|1A|A|4397
8IFD|1|1A|C|4398
8IFD|1|1A|U|4399
8IFD|1|1A|G|4400
*
8IFD|1|1A|C|4444
8IFD|1|1A|U|4445
8IFD|1|1A|U|4446
8IFD|1|1A|C|4447
8IFD|1|1A|G|4448
8IFD|1|1A|A|4449
8IFD|1|1A|U|4450
8IFD|1|1A|G|4451
8IFD|1|1A|U|4452
8IFD|1|1A|C|4453
*
8IFD|1|1A|G|4528
8IFD|1|1A|G|4529
8IFD|1|1A|U|4530
8IFD|1|1A|U|4531
8IFD|1|1A|U|4532
8IFD|1|1A|A|4533
8IFD|1|1A|G|4534
*
8IFD|1|1A|U|4552
8IFD|1|1A|A|4553
8IFD|1|1A|G|4554
8IFD|1|1A|U|4555
8IFD|1|1A|U|4556
8IFD|1|1A|U|4557

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1D

60S ribosomal protein L8

Chain 1E

60S ribosomal protein L3

Chain 1F

60S ribosomal protein L4

Chain 2V

60S ribosomal protein L29