8Y6O
Cryo-EM Structure of the human minor pre-B complex (pre-precatalytic spliceosome) U11 and tri-snRNP part
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 | polymer | 280 | 89522.7 | 1 | Homo sapiens (human) | ||
| 2 | B (B) | U5 snRNA | polymer | 117 | 37254.9 | 1 | GenBank (20330981) | Homo sapiens (human) | |
| 3 | C (C) | 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 |
| 4 | D (D) | 116 kDa U5 small nuclear ribonucleoprotein component | polymer | 972 | 109560.6 | 1 | UniProt (Q15029) Pfam (PF00009) Pfam (PF03144) Pfam (PF14492) Pfam (PF03764) Pfam (PF00679) Pfam (PF16004) | Homo sapiens (human) | Elongation factor Tu GTP-binding domain-containing protein 2,SNU114 homolog,hSNU114,U5 snRNP-specific protein,116 kDa,U5-116 kDa |
| 5 | E (E) | U5 small nuclear ribonucleoprotein 200 kDa helicase | polymer | 2136 | 244823.4 | 1 | UniProt (O75643) Pfam (PF21188) Pfam (PF18149) Pfam (PF00270) Pfam (PF00271) Pfam (PF23445) Pfam (PF02889) | Homo sapiens (human) | Activating signal cointegrator 1 complex subunit 3-like 1,BRR2 homolog,U5 snRNP-specific 200 kDa protein,U5-200KD |
| 6 | F (F) | U5 small nuclear ribonucleoprotein 40 kDa protein | polymer | 357 | 39359.5 | 1 | UniProt (Q96DI7) Pfam (PF00400) | Homo sapiens (human) | U5 snRNP 40 kDa protein,U5-40K,38 kDa-splicing factor,Prp8-binding protein,hPRP8BP,U5 snRNP-specific 40 kDa protein,WD repeat-containing protein 57 |
| 7 | G (G) | Pre-mRNA-processing factor 6 | polymer | 941 | 107092.2 | 1 | UniProt (O94906) Pfam (PF06424) Pfam (PF14559) Pfam (PF13432) | Homo sapiens (human) | Androgen receptor N-terminal domain-transactivating protein 1,ANT-1,PRP6 homolog,U5 snRNP-associated 102 kDa protein,U5-102 kDa protein |
| 8 | H (H) | Thioredoxin-like protein 4B | polymer | 149 | 17034.6 | 1 | UniProt (Q9NX01) Pfam (PF02966) | Homo sapiens (human) | Dim1-like protein |
| 9 | I (I) | Probable ATP-dependent RNA helicase DDX23 | polymer | 820 | 95785.1 | 1 | UniProt (Q9BUQ8) Pfam (PF25430) Pfam (PF00270) Pfam (PF00271) | Homo sapiens (human) | 100 kDa U5 snRNP-specific protein,DEAD box protein 23,PRP28 homolog,U5-100kD |
| 10 | J, KA, X (a, h, o) | Small nuclear ribonucleoprotein-associated proteins B and B' | polymer | 240 | 24642.1 | 3 | UniProt (P14678) Pfam (PF01423) | Homo sapiens (human) | snRNP-B,Sm protein B/B',Sm-B/B',SmB/B' |
| 11 | K, LA, Y (b, i, p) | Small nuclear ribonucleoprotein Sm D1 | polymer | 119 | 13310.7 | 3 | UniProt (P62314) Pfam (PF01423) | Homo sapiens (human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 12 | L, MA, Z (c, j, q) | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 3 | UniProt (P62316) Pfam (PF01423) | Homo sapiens (human) | Sm-D2,snRNP core protein D2 |
| 13 | AA, M, NA (d, k, r) | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 3 | UniProt (P62318) Pfam (PF01423) | Homo sapiens (human) | Sm-D3,snRNP core protein D3 |
| 14 | BA, N, OA (e, l, s) | Small nuclear ribonucleoprotein E | polymer | 92 | 10817.6 | 3 | UniProt (P62304) Pfam (PF01423) | Homo sapiens (human) | snRNP-E,Sm protein E,Sm-E,SmE |
| 15 | CA, O, PA (f, m, t) | Small nuclear ribonucleoprotein F | polymer | 86 | 9734.2 | 3 | UniProt (P62306) Pfam (PF01423) | Homo sapiens (human) | snRNP-F,Sm protein F,Sm-F,SmF |
| 16 | DA, P, QA (g, n, u) | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 3 | UniProt (P62308) Pfam (PF01423) | Homo sapiens (human) | snRNP-G,Sm protein G,Sm-G,SmG |
| 17 | Q (J) | U4atac snRNA | polymer | 131 | 42049.8 | 1 | Homo sapiens (human) | ||
| 18 | R (K) | U6atac snRNA | polymer | 125 | 40221.8 | 1 | GenBank (187960111) | Homo sapiens (human) | |
| 19 | S (L) | U4/U6 small nuclear ribonucleoprotein Prp31 | polymer | 499 | 55529.0 | 1 | UniProt (Q8WWY3) Pfam (PF01798) Pfam (PF09785) | Homo sapiens (human) | Pre-mRNA-processing factor 31,Serologically defined breast cancer antigen NY-BR-99,U4/U6 snRNP 61 kDa protein,Protein 61K,hPrp31 |
| 20 | T (M) | U4/U6 small nuclear ribonucleoprotein Prp4 | polymer | 522 | 58536.1 | 1 | UniProt (O43172) Pfam (PF08799) Pfam (PF00400) | Homo sapiens (human) | PRP4 homolog,hPrp4,U4/U6 snRNP 60 kDa protein,WD splicing factor Prp4 |
| 21 | U (N) | U4/U6 small nuclear ribonucleoprotein Prp3 | polymer | 683 | 77669.2 | 1 | UniProt (O43395) Pfam (PF01480) Pfam (PF08572) Pfam (PF06544) | Homo sapiens (human) | Pre-mRNA-splicing factor 3,hPrp3,U4/U6 snRNP 90 kDa protein |
| 22 | V (O) | NHP2-like protein 1 | polymer | 128 | 14191.5 | 1 | UniProt (P55769) Pfam (PF01248) | Homo sapiens (human) | High mobility group-like nuclear protein 2 homolog 1,OTK27,SNU13 homolog,hSNU13,U4/U6.U5 small nuclear ribonucleoprotein SNU13,U4/U6.U5 tri-snRNP 15.5 kDa protein |
| 23 | W (R) | Centrosomal AT-AC splicing factor | polymer | 332 | 38034.2 | 1 | UniProt (Q86UT8) Pfam (PF14968) | Homo sapiens (human) | Coiled-coil domain-containing protein 84 |
| 24 | EA (P) | U11 snRNA | polymer | 135 | 43505.6 | 1 | GenBank (161169046) | Homo sapiens (human) | |
| 25 | FA (V) | Zinc finger matrin-type protein 5 | polymer | 170 | 20002.8 | 1 | UniProt (Q9UDW3) Pfam (PF06220) Pfam (PF00642) | Homo sapiens (human) | U11/U12 small nuclear ribonucleoprotein 20 kDa protein,U11/U12 snRNP 20 kDa protein,U11/U12-20K |
| 26 | GA (W) | U11/U12 small nuclear ribonucleoprotein 35 kDa protein | polymer | 246 | 29514.5 | 1 | UniProt (Q16560) Pfam (PF00076) | Homo sapiens (human) | U11/U12 snRNP 35 kDa protein,U11/U12-35K,Protein HM-1,U1 snRNP-binding protein homolog |
| 27 | HA (X) | U11/U12 small nuclear ribonucleoprotein 25 kDa protein | polymer | 132 | 15290.7 | 1 | UniProt (Q9BV90) Pfam (PF18036) | Homo sapiens (human) | U11/U12 snRNP 25 kDa protein,U11/U12-25K,Minus-99 protein |
| 28 | IA (Y) | U11/U12 small nuclear ribonucleoprotein 48 kDa protein | polymer | 339 | 40042.6 | 1 | UniProt (Q6IEG0) Pfam (PF05253) | Homo sapiens (human) | U11/U12 snRNP 48 kDa protein,U11/U12-48K |
| 29 | JA (Z) | Programmed cell death protein 7 | polymer | 485 | 54792.0 | 1 | UniProt (Q8N8D1) Pfam (PF16021) | Homo sapiens (human) | ES18,hES18 |
| 30 | RA (S) | U4/U6.U5 tri-snRNP-associated protein 1 | polymer | 800 | 90414.1 | 1 | UniProt (O43290) Pfam (PF19252) Pfam (PF03343) | Homo sapiens (human) | SNU66 homolog,hSnu66,Squamous cell carcinoma antigen recognized by T-cells 1,SART-1,hSART-1,U4/U6.U5 tri-snRNP-associated 110 kDa protein |
| 31 | SA (U) | U4/U6.U5 tri-snRNP-associated protein 2 | polymer | 565 | 65481.4 | 1 | UniProt (Q53GS9) Pfam (PF02148) Pfam (PF00443) | Homo sapiens (human) | Inactive ubiquitin-specific peptidase 39,SAD1 homolog,U4/U6.U5 tri-snRNP-associated 65 kDa protein,65K |
| 32 | TA (Q) | Serine/threonine-protein kinase PRP4 homolog | polymer | 1007 | 117265.0 | 1 | UniProt (Q13523) Pfam (PF00069) | Homo sapiens (human) | PRP4 kinase,PRP4 pre-mRNA-processing factor 4 homolog |
| 33 | UA, XA (B, D) | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) PubChem (888) | |||
| 34 | VA (C) | INOSITOL HEXAKISPHOSPHATE | non-polymer | 660.0 | 1 | Chemie (IHP) | |||
| 35 | WA (D) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) PubChem (177679032) PubChem (135400627) PubChem (135487750) PubChem (136088935) PubChem (136803486) PubChem (135398633) PubChem (135544356) PubChem (135547949) PubChem (135600366) PubChem (135749822) PubChem (136005188) PubChem (136073923) PubChem (136240914) PubChem (136664747) PubChem (136772743) PubChem (136772744) PubChem (136803487) PubChem (137286749) PubChem (164715984) PubChem (171699466) | |||
| 36 | AB, BB, CB, DB, YA... (V, Y, U, R) | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 46 |
| Total formula weight | 2100462.3 | |
| Non-Polymers* | Number of molecules | 10 |
| Total formula weight | 1624.3 | |
| All* | Total formula weight | 2102086.5 |
