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 (PF23726) 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 (PF23445) 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) 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) PubChem (177679032) PubChem (135400627) PubChem (135487750) PubChem (136088935) PubChem (136803486) | |||
| 52 | NB (C) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) PubChem (888) |
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 |
