9QEQ image
Deposition Date 2025-03-10
Release Date 2025-07-09
Last Version Date 2025-07-09
Entry Detail
PDB ID:
9QEQ
Keywords:
SPLICING
Title:
Structure of the transcribing Pol II-DSIF-SPT6-U1 snRNP complex
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
synthetic construct (Taxon ID: 32630)
Sus scrofa domesticus (Taxon ID: 9825)
Host Organism:
Trichoplusia ni
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.50 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
9QEQ validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit
Gene (Uniprot):POLR2A
Chain IDs:A
Chain Length:164
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A8D1DPV6 Pfam ID:PF04997, PF00623, PF04983, PF05000, PF04998, PF04992, PF04990, PF05001
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit beta
Gene (Uniprot):POLR2B
Chain IDs:B
Chain Length:437
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A0B8RVL1 Pfam ID:PF04563, PF04561, PF04565, PF04566, PF04567, PF00562, PF04560
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB3
Gene (Uniprot):POLR2C
Chain IDs:C
Chain Length:282
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:I3LCH3 Pfam ID:PF01193, PF01000
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RNA polymerase II subunit D
Gene (Uniprot):POLR2D
Chain IDs:D
Chain Length:142
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1VM56 Pfam ID:PF03874
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit E
Gene (Uniprot):POLR2E
Chain IDs:E
Chain Length:118
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:I3LSI7 Pfam ID:PF03871, PF01191
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC2
Gene (Uniprot):POLR2F
Chain IDs:F
Chain Length:127
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1VEK9 Pfam ID:PF01192
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase subunit
Gene (Uniprot):POLR2G
Chain IDs:G
Chain Length:172
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1VKG7 Pfam ID:PF03876, PF00575
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC3
Gene (Uniprot):POLR2H
Chain IDs:H
Chain Length:76
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:I3LCB2 Pfam ID:PF03870
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB9
Gene (Uniprot):POLR2I
Chain IDs:I
Chain Length:126
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:P60899 Pfam ID:PF02150, PF01096
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerases I, II, and III subunit RPABC5
Gene (Uniprot):POLR2L
Chain IDs:J
Chain Length:67
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1VYD0 Pfam ID:PF01194
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA-directed RNA polymerase II subunit RPB11-a
Gene (Uniprot):POLR2J
Chain IDs:K
Chain Length:119
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:F1RKE4 Pfam ID:PF13656
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RNA polymerase II, I and III subunit K
Gene (Uniprot):POLR2K
Chain IDs:L
Chain Length:58
Number of Molecules:1
Biological Source:Sus scrofa domesticus
UniProt ID:A0A4X1TRS6 Pfam ID:PF03604
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Transcription elongation factor SPT6
Gene (Uniprot):SUPT6H
Chain IDs:M
Chain Length:1726
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q7KZ85 Pfam ID:PF14632, PF14641, PF22706, PF14639, PF14635, PF17674, PF00575, PF14633
Polymer Type:polydeoxyribonucleotide
Molecule:Non-template DNA
Chain IDs:N
Chain Length:48
Number of Molecules:1
Biological Source:synthetic construct
Polymer Type:polyribonucleotide
Molecule:Pre-mRNA
Chain IDs:O (auth: P)
Chain Length:68
Number of Molecules:1
Biological Source:synthetic construct
Polymer Type:polydeoxyribonucleotide
Molecule:Template DNA
Chain IDs:P (auth: T)
Chain Length:48
Number of Molecules:1
Biological Source:synthetic construct
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Transcription elongation factor SPT4
Gene (Uniprot):SUPT4H1
Chain IDs:Q (auth: Y)
Chain Length:121
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q4R941 Pfam ID:PF06093
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Transcription elongation factor SPT5
Gene (Uniprot):SUPT5H
Chain IDs:R (auth: Z)
Chain Length:1087
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O00267 Pfam ID:PF11942, PF03439, PF00467
Polymer Type:polyribonucleotide
Molecule:U1 snRNA
Chain IDs:S (auth: a)
Chain Length:164
Number of Molecules:1
Biological Source:Homo sapiens
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U1 small nuclear ribonucleoprotein 70 kDa
Gene (Uniprot):SNRNP70
Chain IDs:T (auth: b)
Chain Length:437
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P08621 Pfam ID:PF12220, PF00076
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U1 small nuclear ribonucleoprotein A
Gene (Uniprot):SNRPA
Chain IDs:U (auth: c)
Chain Length:282
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P09012 Pfam ID:PF00076
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D2
Gene (Uniprot):SNRPD2
Chain IDs:V (auth: e)
Chain Length:118
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62316 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein F
Gene (Uniprot):SNRPF
Chain IDs:W (auth: f)
Chain Length:127
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62306 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein E
Gene (Uniprot):SNRPE
Chain IDs:X (auth: g)
Chain Length:172
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62304 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein G
Gene (Uniprot):SNRPG
Chain IDs:Y (auth: h)
Chain Length:76
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62308 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D3
Gene (Uniprot):SNRPD3
Chain IDs:Z (auth: i)
Chain Length:126
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62318 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein-associated protein
Gene (Uniprot):SNRPB
Chain IDs:AA (auth: j)
Chain Length:67
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q66K91 Pfam ID:PF01423
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D1
Gene (Uniprot):SNRPD1
Chain IDs:BA (auth: k)
Chain Length:119
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62314 Pfam ID:PF01423
Ligand Molecules
MG
ZN
Primary Citation
Structure of a transcribing Pol II-DSIF-SPT6-U1 snRNP complex
Nat Commun 16 5823 ? (2025)
DOI: 10.1038/s41467-025-60979-9
Primary Citation of related structures
9QEQ