J5_6ZQB_001

3D structure

PDB id

6ZQB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the 90S pre-ribosome from Saccharomyces cerevisiae, state B2

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

GAUUACUAGC*GCAAUCUAUUUCAAAGAAUUCAAACUUG*CUCUCAA*UAG*CAAAAGAGC

Length

57 nucleotides

Bulged bases

6ZQB|1|D2|U|294, 6ZQB|1|D2|A|295, 6ZQB|1|D2|C|296, 6ZQB|1|D2|U|297, 6ZQB|1|D2|A|298, 6ZQB|1|D2|A|309, 6ZQB|1|D2|A|313, 6ZQB|1|D2|A|322, 6ZQB|1|D2|U|325, 6ZQB|1|D2|C|326, 6ZQB|1|D2|A|329, 6ZQB|1|D2|C|330, 6ZQB|1|D2|U|331, 6ZQB|1|D2|U|332, 6ZQB|1|D2|A|396, 6ZQB|1|D2|A|461

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

6ZQB|1|D2|G|291
6ZQB|1|D2|A|292
6ZQB|1|D2|U|293
6ZQB|1|D2|U|294
6ZQB|1|D2|A|295
6ZQB|1|D2|C|296
6ZQB|1|D2|U|297
6ZQB|1|D2|A|298
6ZQB|1|D2|G|299
6ZQB|1|D2|C|300
*
6ZQB|1|D2|G|306
6ZQB|1|D2|C|307
6ZQB|1|D2|A|308
6ZQB|1|D2|A|309
6ZQB|1|D2|U|310
6ZQB|1|D2|C|311
6ZQB|1|D2|U|312
6ZQB|1|D2|A|313
6ZQB|1|D2|U|314
6ZQB|1|D2|U|315
6ZQB|1|D2|U|316
6ZQB|1|D2|C|317
6ZQB|1|D2|A|318
6ZQB|1|D2|A|319
6ZQB|1|D2|A|320
6ZQB|1|D2|G|321
6ZQB|1|D2|A|322
6ZQB|1|D2|A|323
6ZQB|1|D2|U|324
6ZQB|1|D2|U|325
6ZQB|1|D2|C|326
6ZQB|1|D2|A|327
6ZQB|1|D2|A|328
6ZQB|1|D2|A|329
6ZQB|1|D2|C|330
6ZQB|1|D2|U|331
6ZQB|1|D2|U|332
6ZQB|1|D2|G|333
*
6ZQB|1|D2|C|391
6ZQB|1|D2|U|392
6ZQB|1|D2|C|393
6ZQB|1|D2|U|394
6ZQB|1|D2|C|395
6ZQB|1|D2|A|396
6ZQB|1|D2|A|397
*
6ZQB|1|D2|U|460
6ZQB|1|D2|A|461
6ZQB|1|D2|G|462
*
6ZQB|1|D4|C|54
6ZQB|1|D4|A|55
6ZQB|1|D4|A|56
6ZQB|1|D4|A|57
6ZQB|1|D4|A|58
6ZQB|1|D4|G|59
6ZQB|1|D4|A|60
6ZQB|1|D4|G|61
6ZQB|1|D4|C|62

Current chains

Chain D2

5ETS RNA

Chain D4

U3 snoRNA

Nearby chains

Chain CE

Nucleolar protein 58

Chain CI

U3 small nucleolar ribonucleoprotein protein IMP3

Chain CJ

U3 small nucleolar ribonucleoprotein protein IMP4

Chain CL

Ribosome biogenesis protein BMS1

Chain UA

Periodic tryptophan protein 2

Chain UG

U3 small nucleolar RNA-associated protein 7

Chain UK

U3 small nucleolar RNA-associated protein 11

Chain UN

U3 small nucleolar RNA-associated protein 14,U3 small nucleolar RNA-associated protein 14

Chain UR

U3 small nucleolar RNA-associated protein 18

Chain UU

U3 small nucleolar RNA-associated protein 21

Chain UX

rRNA-processing protein FCF1