7ABG image
Deposition Date 2020-09-07
Release Date 2020-12-23
Last Version Date 2024-05-01
Entry Detail
PDB ID:
7ABG
Keywords:
SPLICING
Title:
Human pre-Bact-1 spliceosome
Biological Source:
Source Organism:
synthetic construct (Taxon ID: 32630)
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
7.80 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
7ABG validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Smad nuclear-interacting protein 1
Gene (Uniprot):SNIP1
Chain IDs:KA (auth: 0)
Chain Length:396
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8TAD8 Pfam ID:PF00498
Polymer Type:polyribonucleotide
Molecule:U2 snRNA
Chain IDs:S (auth: 2)
Chain Length:188
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3A subunit 3
Gene (Uniprot):SF3A3
Chain IDs:CA (auth: 4)
Chain Length:501
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q12874 Pfam ID:PF12108, PF11931, PF16837, PF13297
Polymer Type:polyribonucleotide
Molecule:U5 snRNA
Chain IDs:K (auth: 5)
Chain Length:116
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polyribonucleotide
Molecule:U6 snRNA
Chain IDs:OA (auth: 6)
Chain Length:106
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U6 snRNA-associated Sm-like protein LSm3
Gene (Uniprot):LSM3
Chain IDs:O (auth: 9)
Chain Length:102
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62310 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pre-mRNA-processing-splicing factor 8
Gene (Uniprot):PRPF8
Chain IDs:Y (auth: A)
Chain Length:118
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q6P2Q9 Pfam ID:PF08082, PF08083, PF10598, PF10597, PF10596, PF12134, PF01398, PF08084
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nuclear cap-binding protein subunit 2
Gene (Uniprot):NCBP2
Chain IDs:J (auth: A1)
Chain Length:156
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P52298 Pfam ID:PF00076
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U6 snRNA-associated Sm-like protein LSm7
Gene (Uniprot):LSM7
Chain IDs:B (auth: A2)
Chain Length:103
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9UK45 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U6 snRNA-associated Sm-like protein LSm8
Gene (Uniprot):LSM8
Chain IDs:T (auth: A3)
Chain Length:96
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O95777 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Transcription elongation regulator 1
Gene (Uniprot):TCERG1
Chain IDs:DA (auth: A4)
Chain Length:1098
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O14776 Pfam ID:PF00397, PF01846
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nuclear cap-binding protein subunit 1
Gene (Uniprot):NCBP1
Chain IDs:A (auth: A5)
Chain Length:790
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q09161 Pfam ID:PF02854, PF09088, PF09090
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Serine/arginine-rich splicing factor 1
Gene (Uniprot):SRSF1
Chain IDs:PA (auth: A6)
Chain Length:248
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q07955 Pfam ID:PF00076
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U2 small nuclear ribonucleoprotein B''
Gene (Uniprot):SNRPB2
Chain IDs:G (auth: B)
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P08579 Pfam ID:PF00076
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U6 snRNA-associated Sm-like protein LSm4
Gene (Uniprot):LSM4
Chain IDs:P (auth: C)
Chain Length:139
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9Y4Z0 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U5 small nuclear ribonucleoprotein 40 kDa protein
Gene (Uniprot):SNRNP40
Chain IDs:E (auth: D)
Chain Length:357
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q96DI7 Pfam ID:PF00400
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3B subunit 3
Gene (Uniprot):SF3B3
Chain IDs:GA (auth: E)
Chain Length:126
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q15393 Pfam ID:PF10433, PF03178
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3A subunit 2
Gene (Uniprot):SF3A2
Chain IDs:D (auth: F)
Chain Length:464
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q15428 Pfam ID:PF12874, PF16835
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pleiotropic regulator 1
Gene (Uniprot):PLRG1
Chain IDs:W (auth: G)
Chain Length:119
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O43660 Pfam ID:PF00400
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U6 snRNA-associated Sm-like protein LSm5
Gene (Uniprot):LSM5
Chain IDs:Q (auth: H)
Chain Length:91
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9Y4Y9 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pre-mRNA-splicing factor 38A
Gene (Uniprot):PRPF38A
Chain IDs:Z (auth: I)
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8NAV1 Pfam ID:PF12871, PF03371
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U6 snRNA-associated Sm-like protein LSm6
Gene (Uniprot):LSM6
Chain IDs:R (auth: J)
Chain Length:92
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P62312 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Microfibrillar-associated protein 1
Gene (Uniprot):MFAP1
Chain IDs:U (auth: K)
Chain Length:76
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P55081 Pfam ID:PF06991
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cell division cycle 5-like protein
Gene (Uniprot):CDC5L
Chain IDs:L
Chain Length:126
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q99459 Pfam ID:PF13921, PF11831
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Zinc finger matrin-type protein 2
Gene (Uniprot):ZMAT2
Chain IDs:LA (auth: N)
Chain Length:119
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q96NC0 Pfam ID:PF12171
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Pre-mRNA-splicing factor RBM22
Gene (Uniprot):RBM22
Chain IDs:AA (auth: P)
Chain Length:793
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9NW64 Pfam ID:PF21369, PF00076
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein BUD31 homolog
Gene (Uniprot):BUD31
Chain IDs:I (auth: Q)
Chain Length:73
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P41223 Pfam ID:PF01125
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Spliceosome-associated protein CWC15 homolog
Gene (Uniprot):CWC15
Chain IDs:M (auth: R)
Chain Length:972
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9P013 Pfam ID:PF04889
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3B subunit 2
Gene (Uniprot):SF3B2
Chain IDs:FA (auth: T)
Chain Length:895
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q13435 Pfam ID:PF04037, PF02037, PF04046
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U6 snRNA-associated Sm-like protein LSm2
Gene (Uniprot):LSM2
Chain IDs:N (auth: V)
Chain Length:536
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9Y333 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U2 small nuclear ribonucleoprotein A'
Gene (Uniprot):SNRPA1
Chain IDs:F (auth: W)
Chain Length:424
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:P09661 Pfam ID:PF14580
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:WW domain-binding protein 11
Gene (Uniprot):WBP11
Chain IDs:FB (auth: X)
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9Y2W2 Pfam ID:PF09429
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Serine/arginine repetitive matrix protein 1
Gene (Uniprot):SRRM1
Chain IDs:NA (auth: Y)
Chain Length:110
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q8IYB3 Pfam ID:PF01480
Polymer Type:polyribonucleotide
Molecule:MINX M3 pre-mRNA
Chain IDs:X (auth: Z)
Chain Length:230
Number of Molecules:1
Biological Source:synthetic construct
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D2
Gene (Uniprot):SNRPD2
Chain IDs:QA (auth: h), ZA (auth: a)
Chain Length:118
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P62316 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein F
Gene (Uniprot):SNRPF
Chain IDs:RA (auth: i), CB (auth: b)
Chain Length:86
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P62306 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein E
Gene (Uniprot):SNRPE
Chain IDs:VA (auth: j), BB (auth: c)
Chain Length:139
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P62304 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein G
Gene (Uniprot):SNRPG
Chain IDs:UA (auth: k), DB (auth: d)
Chain Length:357
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P62308 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D3
Gene (Uniprot):SNRPD3
Chain IDs:TA (auth: l), AB (auth: e)
Chain Length:126
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P62318 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein-associated proteins B and B'
Gene (Uniprot):SNRPB
Chain IDs:SA (auth: m), XA (auth: f)
Chain Length:464
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P14678 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Small nuclear ribonucleoprotein Sm D1
Gene (Uniprot):SNRPD1
Chain IDs:WA (auth: n), YA (auth: g)
Chain Length:119
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:P62314 Pfam ID:PF01423
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3A subunit 1
Gene (Uniprot):SF3A1
Chain IDs:BA (auth: p)
Chain Length:793
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q15459 Pfam ID:PF01805, PF12230, PF00240
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Ubiquitin-like protein 5
Gene (Uniprot):UBL5
Chain IDs:EB (auth: q)
Chain Length:73
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BZL1 Pfam ID:PF00240
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:116 kDa U5 small nuclear ribonucleoprotein component
Gene (Uniprot):EFTUD2
Chain IDs:MA (auth: r)
Chain Length:972
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q15029 Pfam ID:PF03144, PF14492, PF03764, PF16004, PF00009, PF00679
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:U5 small nuclear ribonucleoprotein 200 kDa helicase
Gene (Uniprot):SNRNP200
Chain IDs:H (auth: s)
Chain Length:2136
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O75643 Pfam ID:PF18149, PF02889, PF21188, PF00271, PF00270 EC:3.6.4.13
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3B subunit 1
Gene (Uniprot):SF3B1
Chain IDs:EA (auth: u)
Chain Length:1304
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:O75533 Pfam ID:PF08920, PF22646
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:SNW domain-containing protein 1
Gene (Uniprot):SNW1
Chain IDs:JA (auth: v)
Chain Length:536
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q13573 Pfam ID:PF02731
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3B subunit 4
Gene (Uniprot):SF3B4
Chain IDs:HA (auth: w)
Chain Length:424
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q15427 Pfam ID:PF00076
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3B subunit 5
Gene (Uniprot):SF3B5
Chain IDs:IA (auth: x)
Chain Length:86
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9BWJ5 Pfam ID:PF07189
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:PHD finger-like domain-containing protein 5A
Gene (Uniprot):PHF5A
Chain IDs:V (auth: y)
Chain Length:110
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q7RTV0 Pfam ID:PF03660
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Splicing factor 3B subunit 6
Gene (Uniprot):SF3B6
Chain IDs:C (auth: z)
Chain Length:230
Number of Molecules:1
Biological Source:Homo sapiens
UniProt ID:Q9Y3B4 Pfam ID:PF00076
Ligand Molecules
GTG
GTP
IHP
MG
Primary Citation
Mechanism of protein-guided folding of the active site U2/U6 RNA during spliceosome activation.
Science 370 ? ? (2020)
PMID: 33243851 DOI: 10.1126/science.abc3753

Abstact

Spliceosome activation involves extensive protein and RNA rearrangements that lead to formation of a catalytically active U2/U6 RNA structure. At present, little is known about the assembly pathway of the latter and the mechanism whereby proteins aid its proper folding. Here, we report the cryo-electron microscopy structures of two human, activated spliceosome precursors (that is, pre-Bact complexes) at core resolutions of 3.9 and 4.2 angstroms. These structures elucidate the order of the numerous protein exchanges that occur during activation, the mutually exclusive interactions that ensure the correct order of ribonucleoprotein rearrangements needed to form the U2/U6 catalytic RNA, and the stepwise folding pathway of the latter. Structural comparisons with mature Bact complexes reveal the molecular mechanism whereby a conformational change in the scaffold protein PRP8 facilitates final three-dimensional folding of the U2/U6 catalytic RNA.

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Disease

Primary Citation of related structures
7ABF
7AAV
7ABH
7ABI