5Z57
Cryo-EM structure of the human activated spliceosome (late Bact) at 6.5 angstrom
This is a non-PDB format compatible entry.
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | Pre-mRNA-processing-splicing factor 8 | polymer | 2335 | 273974.3 | 1 | UniProt (Q6P2Q9) Pfam (PF08082) Pfam (PF08083) Pfam (PF10598) Pfam (PF10597) Pfam (PF10596) Pfam (PF12134) Pfam (PF01398) Pfam (PF08084) | Homo sapiens (Human) | 220 kDa U5 snRNP-specific protein,PRP8 homolog,Splicing factor Prp8,p220 |
| 2 | B (B) | U5 snRNA | polymer | 117 | 37254.9 | 1 | GenBank (20330981) | Homo sapiens (Human) | |
| 3 | C (C) | 116 kDa U5 small nuclear ribonucleoprotein component | polymer | 972 | 109560.6 | 1 | UniProt (Q15029) Pfam (PF16004) Pfam (PF00009) Pfam (PF03144) Pfam (PF14492) Pfam (PF03764) Pfam (PF00679) | Homo sapiens (Human) | Elongation factor Tu GTP-binding domain-containing protein 2,SNU114 homolog,hSNU114,U5 snRNP-specific protein,116 kDa,U5-116 kDa |
| 4 | D (D) | U5 small nuclear ribonucleoprotein 200 kDa helicase | polymer | 2136 | 244823.4 | 1 | UniProt (O75643) Pfam (PF21188) Pfam (PF18149) Pfam (PF00270) Pfam (PF00271) Pfam (PF02889) | Homo sapiens (Human) | Activating signal cointegrator 1 complex subunit 3-like 1,BRR2 homolog,U5 snRNP-specific 200 kDa protein,U5-200KD |
| 5 | E (E) | U5 small nuclear ribonucleoprotein 40 kDa protein | polymer | 357 | 39359.5 | 1 | UniProt (Q96DI7) Pfam (PF00400) | Homo sapiens (Human) | U5-40K,38 kDa-splicing factor,Prp8-binding protein,hPRP8BP,U5 snRNP-specific 40 kDa protein,WD repeat-containing protein 57 |
| 6 | F, P (a, h) | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 2 | UniProt (P62318) Pfam (PF01423) | Homo sapiens (Human) | Sm-D3,snRNP core protein D3 |
| 7 | G, Q (b, i) | Small nuclear ribonucleoprotein-associated proteins B and B' | polymer | 231 | 23686.0 | 2 | UniProt (P14678) Pfam (PF01423) | Homo sapiens (Human) | snRNP-B,Sm protein B/B',SmB/B' |
| 8 | H, R (c, j) | Small nuclear ribonucleoprotein Sm D1 | polymer | 119 | 13310.7 | 2 | UniProt (P62314) Pfam (PF01423) | Homo sapiens (Human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 9 | I, S (d, k) | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 2 | UniProt (P62316) Pfam (PF01423) | Homo sapiens (Human) | Sm-D2,snRNP core protein D2 |
| 10 | J, T (f, m) | Small nuclear ribonucleoprotein F | polymer | 86 | 9734.2 | 2 | UniProt (P62306) Pfam (PF01423) | Homo sapiens (Human) | snRNP-F,Sm protein F,SmF |
| 11 | K, U (e, l) | Small nuclear ribonucleoprotein E | polymer | 92 | 10817.6 | 2 | UniProt (P62304) Pfam (PF01423) | Homo sapiens (Human) | snRNP-E,Sm protein E,SmE |
| 12 | L, V (g, n) | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 2 | UniProt (P62308) Pfam (PF01423) | Homo sapiens (Human) | snRNP-G,Sm protein G,SmG |
| 13 | M (F) | U6 snRNA | polymer | 107 | 34404.4 | 1 | Homo sapiens (Human) | ||
| 14 | N (G) | pre-mRNA | polymer | 274 | 87892.7 | 1 | unidentified adenovirus | ||
| 15 | O (H) | U2 snRNA | polymer | 188 | 60186.4 | 1 | GenBank (340097) | Homo sapiens (Human) | |
| 16 | W (o) | U2 small nuclear ribonucleoprotein A' | polymer | 255 | 28456.6 | 1 | UniProt (P09661) Pfam (PF14580) | Homo sapiens (Human) | U2 snRNP A' |
| 17 | X (p) | U2 small nuclear ribonucleoprotein B'' | polymer | 225 | 25524.4 | 1 | UniProt (P08579) Pfam (PF00076) | Homo sapiens (Human) | U2 snRNP B'' |
| 18 | Y (w) | Splicing factor 3A subunit 3 | polymer | 501 | 58934.8 | 1 | UniProt (Q12874) Pfam (PF12108) Pfam (PF16837) Pfam (PF13297) Pfam (PF11931) | Homo sapiens (Human) | SF3a60,Spliceosome-associated protein 61,SAP 61 |
| 19 | Z (u) | Splicing factor 3A subunit 1 | polymer | 793 | 88991.1 | 1 | UniProt (Q15459) Pfam (PF01805) Pfam (PF12230) Pfam (PF00240) | Homo sapiens (Human) | SF3a120,Spliceosome-associated protein 114,SAP 114 |
| 20 | AA (v) | Splicing factor 3A subunit 2 | polymer | 464 | 49327.4 | 1 | UniProt (Q15428) Pfam (PF16835) Pfam (PF12874) | Homo sapiens (Human) | SF3a66,Spliceosome-associated protein 62,SAP 62 |
| 21 | BA (1) | Splicing factor 3B subunit 1 | polymer | 1304 | 146024.9 | 1 | UniProt (O75533) Pfam (PF08920) Pfam (PF22646) | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 155 kDa subunit,SF3b155,Spliceosome-associated protein 155,SAP 155 |
| 22 | CA (2) | Splicing factor 3B subunit 2 | polymer | 895 | 100377.8 | 1 | UniProt (Q13435) Pfam (PF02037) Pfam (PF04037) Pfam (PF04046) | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 145 kDa subunit,SF3b145,Spliceosome-associated protein 145,SAP 145 |
| 23 | DA (3) | Splicing factor 3B subunit 3 | polymer | 1217 | 135718.8 | 1 | UniProt (Q15393) Pfam (PF10433) Pfam (PF03178) | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 130 kDa subunit,SF3b130,STAF130,Spliceosome-associated protein 130,SAP 130 |
| 24 | EA (4) | Splicing factor 3B subunit 4 | polymer | 424 | 44436.6 | 1 | UniProt (Q15427) Pfam (PF00076) | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 49 kDa subunit,Spliceosome-associated protein 49,SAP 49 |
| 25 | FA (5) | Splicing factor 3B subunit 6 | polymer | 125 | 14606.9 | 1 | UniProt (Q9Y3B4) Pfam (PF00076) | Homo sapiens (Human) | Pre-mRNA branch site protein p14,SF3b 14 kDa subunit,SF3B14a,Spliceosome-associated protein,14-kDa,Splicing factor 3b,subunit 6,14kDa |
| 26 | GA (6) | PHD finger-like domain-containing protein 5A | polymer | 110 | 12427.5 | 1 | UniProt (Q7RTV0) Pfam (PF03660) | Homo sapiens (Human) | PHD finger-like domain protein 5A,Splicing factor 3B-associated 14 kDa protein,SF3b14b |
| 27 | HA (7) | Splicing factor 3B subunit 5 | polymer | 86 | 10149.4 | 1 | UniProt (Q9BWJ5) Pfam (PF07189) | Homo sapiens (Human) | SF3b5,Pre-mRNA-splicing factor SF3b 10 kDa subunit |
| 28 | IA (J) | Crooked neck-like protein 1 | polymer | 848 | 100610.0 | 1 | UniProt (Q9BZJ0) Pfam (PF02184) | Homo sapiens (Human) | Crooked neck homolog,hCrn |
| 29 | JA (L) | Cell division cycle 5-like protein | polymer | 802 | 92406.9 | 1 | UniProt (Q99459) Pfam (PF13921) Pfam (PF11831) | Homo sapiens (Human) | Cdc5-like protein,Pombe cdc5-related protein |
| 30 | KA, LA, MA, NA (q, r, s, t) | Pre-mRNA-processing factor 19 | polymer | 504 | 55245.5 | 4 | UniProt (Q9UMS4) Pfam (PF04564) Pfam (PF08606) Pfam (PF00400) | Homo sapiens (Human) | Nuclear matrix protein 200,PRP19/PSO4 homolog,hPso4,RING-type E3 ubiquitin transferase PRP19,Senescence evasion factor |
| 31 | OA (K) | Pre-mRNA-splicing factor SPF27 | polymer | 225 | 26163.4 | 1 | UniProt (O75934) Pfam (PF05700) | Homo sapiens (Human) | Breast carcinoma-amplified sequence 2,DNA amplified in mammary carcinoma 1 protein,Spliceosome-associated protein SPF 27 |
| 32 | PA (I) | Pre-mRNA-splicing factor SYF1 | polymer | 855 | 100148.7 | 1 | UniProt (Q9HCS7) Pfam (PF13181) | Homo sapiens (Human) | Protein HCNP,XPA-binding protein 2 |
| 33 | QA (Q) | Intron-binding protein aquarius | polymer | 1485 | 171502.5 | 1 | UniProt (O60306) Pfam (PF16399) Pfam (PF21143) Pfam (PF21144) Pfam (PF13086) Pfam (PF13087) | Homo sapiens (Human) | Intron-binding protein of 160 kDa,IBP160 |
| 34 | RA (N) | Protein BUD31 homolog | polymer | 144 | 17032.8 | 1 | UniProt (P41223) Pfam (PF01125) | Homo sapiens (Human) | Protein EDG-2,Protein G10 homolog |
| 35 | SA (O) | Pre-mRNA-splicing factor RBM22 | polymer | 420 | 46959.6 | 1 | UniProt (Q9NW64) Pfam (PF21369) Pfam (PF00076) | Homo sapiens (Human) | RNA-binding motif protein 22,Zinc finger CCCH domain-containing protein 16 |
| 36 | TA (P) | Spliceosome-associated protein CWC15 homolog | polymer | 229 | 26674.4 | 1 | UniProt (Q9P013) Pfam (PF04889) | Homo sapiens (Human) | |
| 37 | UA (R) | Skip | polymer | 540 | 62063.2 | 1 | Homo sapiens (Human) | ||
| 38 | VA (S) | Peptidyl-prolyl cis-trans isomerase-like 1 | polymer | 166 | 18257.8 | 1 | UniProt (Q9Y3C6) Pfam (PF00160) | Homo sapiens (Human) | PPIase,Rotamase PPIL1 |
| 39 | WA (T) | Pleiotropic regulator 1 | polymer | 514 | 57280.8 | 1 | UniProt (O43660) Pfam (PF00400) | Homo sapiens (Human) | |
| 40 | XA (U) | Serine/arginine repetitive matrix protein 2 | polymer | 2752 | 300255.3 | 1 | UniProt (Q9UQ35) Pfam (PF08312) | Homo sapiens (Human) | 300 kDa nuclear matrix antigen,Serine/arginine-rich splicing factor-related nuclear matrix protein of 300 kDa,Ser/Arg-related nuclear matrix protein of 300 kDa,Splicing coactivator subunit SRm300,Tax-responsive enhancer element-binding protein 803,TaxREB803 |
| 41 | YA (V) | Pre-mRNA-splicing factor CWC22 homolog | polymer | 908 | 105646.6 | 1 | UniProt (Q9HCG8) Pfam (PF02854) Pfam (PF02847) | Homo sapiens (Human) | Nucampholin homolog,fSAPb |
| 42 | ZA (W) | Pre-mRNA-processing factor 17 | polymer | 579 | 65612.2 | 1 | UniProt (O60508) Pfam (PF00400) | Homo sapiens (Human) | Cell division cycle 40 homolog,EH-binding protein 3,Ehb3,PRP17 homolog,hPRP17 |
| 43 | AB (X) | Smad nuclear-interacting protein 1 | polymer | 396 | 45880.7 | 1 | UniProt (Q8TAD8) Pfam (PF00498) | Homo sapiens (Human) | FHA domain-containing protein SNIP1 |
| 44 | BB (Y) | RNA-binding motif protein, X-linked 2 | polymer | 322 | 37426.0 | 1 | UniProt (Q9Y388) Pfam (PF00076) | Homo sapiens (Human) | |
| 45 | CB (Z) | BUD13 homolog | polymer | 619 | 70669.2 | 1 | UniProt (Q9BRD0) Pfam (PF09736) | Homo sapiens (Human) | |
| 46 | DB (x) | Pre-mRNA-splicing factor ATP-dependent RNA helicase DHX16 | polymer | 1041 | 119443.6 | 1 | UniProt (O60231) Pfam (PF00270) Pfam (PF00271) Pfam (PF04408) Pfam (PF21010) Pfam (PF07717) | Homo sapiens (Human) | ATP-dependent RNA helicase #3,DEAH-box protein 16 |
| 47 | EB (y) | Peptidyl-prolyl cis-trans isomerase E | polymer | 301 | 33475.8 | 1 | UniProt (Q9UNP9) Pfam (PF00076) Pfam (PF00160) | Homo sapiens (Human) | PPIase E,Cyclophilin E,Cyclophilin-33,Rotamase E |
| 48 | FB (A) | INOSITOL HEXAKISPHOSPHATE | non-polymer | 660.0 | 1 | Chemie (IHP) | |||
| 49 | GB (A) | ALANINE | non-polymer | 89.1 | 1 | Chemie (ALA) | |||
| 50 | HB (C) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 51 | IB, JB, KB, LB, MB... (C, F) | MAGNESIUM ION | non-polymer | 24.3 | 6 | Chemie (MG) | |||
| 52 | OB, PB, QB, RB, SB... (v, 6, N, O) | ZINC ION | non-polymer | 65.4 | 10 | Chemie (ZN) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 57 |
| Total formula weight | 3508021.6 | |
| Non-Polymers* | Number of molecules | 19 |
| Total formula weight | 2072.2 | |
| All* | Total formula weight | 3510093.8 |
