6AHD
The Cryo-EM Structure of Human Pre-catalytic Spliceosome (B complex) at 3.8 angstrom resolution
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 (I) | U4snRNA | polymer | 144 | 46181.3 | 1 | GenBank (340142) | Homo sapiens (Human) | |
| 3 | C (B) | U5snRNA | polymer | 117 | 37254.9 | 1 | GenBank (20330981) | Homo sapiens (Human) | |
| 4 | D (F) | U6snRNA | polymer | 107 | 34404.4 | 1 | Homo sapiens (Human) | ||
| 5 | E (G) | pre-mRNA | polymer | 274 | 87892.7 | 1 | Homo sapiens (Human) | ||
| 6 | F (O) | Thioredoxin-like protein 4A | polymer | 142 | 16807.3 | 1 | UniProt (P83876) Pfam (PF02966) | Homo sapiens (Human) | DIM1 protein homolog,Spliceosomal U5 snRNP-specific 15 kDa protein,Thioredoxin-like U5 snRNP protein U5-15kD |
| 7 | G (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 |
| 8 | H (N) | 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 |
| 9 | I (M) | 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 |
| 10 | J (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,hPrp31 |
| 11 | K (9) | 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,hSART-1,U4/U6.U5 tri-snRNP-associated 110 kDa protein |
| 12 | L (J) | 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 |
| 13 | AB, DA, M (a, i, U) | SmB | polymer | 231 | 23686.0 | 3 | Homo sapiens (Human) | ||
| 14 | BB, EA, N (b, j, V) | 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 |
| 15 | FA, O, VA (c, k, P) | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 3 | UniProt (P62316) Pfam (PF01423) | Homo sapiens (Human) | Sm-D2,snRNP core protein D2 |
| 16 | GA, P, WA (d, l, Q) | SmE | polymer | 86 | 9734.2 | 3 | Homo sapiens (Human) | ||
| 17 | HA, Q, XA (e, m, R) | SmF | polymer | 92 | 10817.6 | 3 | Homo sapiens (Human) | ||
| 18 | IA, R, YA (f, n, S) | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 3 | UniProt (P62308) Pfam (PF01423) | Homo sapiens (Human) | snRNP-G,Sm protein G,SmG |
| 19 | CA, S, ZA (g, h, T) | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 3 | UniProt (P62318) Pfam (PF01423) | Homo sapiens (Human) | Sm-D3,snRNP core protein D3 |
| 20 | T (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 |
| 21 | U (X) | WW domain-binding protein 4 | polymer | 376 | 42575.8 | 1 | UniProt (O75554) Pfam (PF06220) Pfam (PF00397) | Homo sapiens (Human) | WBP-4,Formin-binding protein 21,WW domain-containing-binding protein 4 |
| 22 | V (W) | Peptidyl-prolyl cis-trans isomerase H | polymer | 177 | 19230.1 | 1 | UniProt (O43447) Pfam (PF00160) | Homo sapiens (Human) | PPIase H,Rotamase H,Small nuclear ribonucleoprotein particle-specific cyclophilin H,CypH,U-snRNP-associated cyclophilin SnuCyp-20,USA-CYP |
| 23 | W (A0) | Ubiquitin-like protein 5 | polymer | 73 | 8560.9 | 1 | UniProt (Q9BZL1) Pfam (PF00240) | Homo sapiens (Human) | |
| 24 | X (0) | Microfibrillar-associated protein 1 | polymer | 439 | 52050.5 | 1 | UniProt (P55081) Pfam (PF06991) | Homo sapiens (Human) | Spliceosome B complex protein MFAP1 |
| 25 | Y (Z) | Pre-mRNA-splicing factor 38A | polymer | 312 | 37563.9 | 1 | UniProt (Q8NAV1) Pfam (PF03371) Pfam (PF12871) | Homo sapiens (Human) | |
| 26 | Z (8) | Zinc finger matrin-type protein 2 | polymer | 199 | 23664.0 | 1 | UniProt (Q96NC0) Pfam (PF12171) | Homo sapiens (Human) | |
| 27 | AA (Y) | WD40 repeat-containing protein SMU1 | polymer | 513 | 57616.7 | 1 | UniProt (Q2TAY7) Pfam (PF17814) Pfam (PF00400) | Homo sapiens (Human) | Smu-1 suppressor of mec-8 and unc-52 protein homolog |
| 28 | BA (H) | U2snRNA | polymer | 188 | 60186.4 | 1 | GenBank (340097) | Homo sapiens (Human) | |
| 29 | JA (o) | U2 small nuclear ribonucleoprotein A' | polymer | 255 | 28456.6 | 1 | UniProt (P09661) Pfam (PF14580) | Homo sapiens (Human) | U2 snRNP A' |
| 30 | KA (p) | U2 small nuclear ribonucleoprotein B'' | polymer | 225 | 25524.4 | 1 | UniProt (P08579) Pfam (PF00076) | Homo sapiens (Human) | U2 snRNP B'' |
| 31 | LA (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 |
| 32 | MA (v) | Splicing factor 3A subunit 2 | polymer | 464 | 49327.4 | 1 | UniProt (Q15428) Pfam (PF12874) Pfam (PF16835) | Homo sapiens (Human) | SF3a66,Spliceosome-associated protein 62,SAP 62 |
| 33 | NA (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 |
| 34 | OA (q) | U6 snRNA-associated Sm-like protein LSm2 | polymer | 95 | 10847.5 | 1 | UniProt (Q9Y333) Pfam (PF01423) | Homo sapiens (Human) | Protein G7b,Small nuclear ribonuclear protein D homolog,snRNP core Sm-like protein Sm-x5 |
| 35 | PA (r) | U6 snRNA-associated Sm-like protein LSm3 | polymer | 102 | 11859.4 | 1 | UniProt (P62310) Pfam (PF01423) | Homo sapiens (Human) | |
| 36 | QA (s) | U6 snRNA-associated Sm-like protein LSm4 | polymer | 139 | 15375.8 | 1 | UniProt (Q9Y4Z0) Pfam (PF01423) | Homo sapiens (Human) | Glycine-rich protein,GRP |
| 37 | RA (t) | U6 snRNA-associated Sm-like protein LSm5 | polymer | 91 | 9945.4 | 1 | UniProt (Q9Y4Y9) Pfam (PF01423) | Homo sapiens (Human) | |
| 38 | SA (x) | U6 snRNA-associated Sm-like protein LSm6 | polymer | 80 | 9139.6 | 1 | UniProt (P62312) Pfam (PF01423) | Homo sapiens (Human) | |
| 39 | TA (y) | U6 snRNA-associated Sm-like protein LSm7 | polymer | 103 | 11617.4 | 1 | UniProt (Q9UK45) Pfam (PF01423) | Homo sapiens (Human) | |
| 40 | UA (z) | U6 snRNA-associated Sm-like protein LSm8 | polymer | 96 | 10410.6 | 1 | UniProt (O95777) Pfam (PF01423) | Homo sapiens (Human) | |
| 41 | CB (K) | U4/U6 small nuclear ribonucleoprotein Prp4 | polymer | 522 | 58536.1 | 1 | UniProt (O43172) Pfam (PF08799) Pfam (PF00400) | Homo sapiens (Human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 42 | DB (1) | Splicing factor 3B subunit 1 | polymer | 1304 | 146024.9 | 1 | UniProt (O75533) Pfam (PF08920) Pfam (PF22646) | Homo sapiens (Human) | Prp4, Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 43 | EB (3) | Splicing factor 3B subunit 3 | polymer | 1217 | 135718.8 | 1 | UniProt (Q15393) Pfam (PF10433) Pfam (PF03178) | Homo sapiens (Human) | SF3b155, Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 44 | FB (5) | SF3b14a, Splicing factor 3B subunit 6 | polymer | 125 | 14606.9 | 1 | UniProt (Q9Y3B4) Pfam (PF00076) | Homo sapiens (Human) | Spliceosome-associated protein, 14-kDa Splicing factor 3b, subunit 6 |
| 45 | GB (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 |
| 46 | HB (7) | SF3b5, Splicing factor 3B subunit 5 | polymer | 86 | 10149.4 | 1 | UniProt (Q9BWJ5) Pfam (PF07189) | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 10 kDa subunit |
| 47 | IB (2) | SF3b145, 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, Spliceosome-associated protein 145, SAP 145 |
| 48 | JB (4) | SF3b49, 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 |
| 49 | KB (D) | Brr2, 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) | BRR2 homolog, U5 snRNP-specific 200 kDa protein, U5-200KD |
| 50 | LB (A) | INOSITOL HEXAKISPHOSPHATE | non-polymer | 660.0 | 1 | Chemie (IHP) | |||
| 51 | MB (C) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 52 | NB (C) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 63 |
| Total formula weight | 2669957.2 | |
| Non-Polymers* | Number of molecules | 3 |
| Total formula weight | 1207.5 | |
| All* | Total formula weight | 2671164.7 |
