7EVO
The cryo-EM structure of the human 17S U2 snRNP
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (H) | U2 snRNA | polymer | 188 | 60186.4 | 1 | GenBank (340097) | Homo sapiens (Human) | |
| 2 | B (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 |
| 3 | C (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 |
| 4 | D (3) | Splicing factor 3B subunit 3 | polymer | 1217 | 135718.8 | 1 | UniProt (Q15393) Pfam (PF10433) Pfam (PF23726) Pfam (PF03178) | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 130 kDa subunit,SF3b130,STAF130,Spliceosome-associated protein 130,SAP 130 |
| 5 | E (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 |
| 6 | F (5) | 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 |
| 7 | G (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 |
| 8 | H (A) | 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 |
| 9 | I (B) | 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 |
| 10 | J (C) | 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 |
| 11 | K (D) | HIV Tat-specific factor 1 | polymer | 755 | 85966.0 | 1 | UniProt (O43719) Pfam (PF00076) | Homo sapiens (Human) | Tat-SF1 |
| 12 | L (E) | RNA helicase | polymer | 1052 | 119807.7 | 1 | UniProt (A0A0C4DG89) Pfam (PF00270) Pfam (PF00271) Pfam (PF23469) UniProt (by SIFTS) (Q7L014) | Homo sapiens (Human) | |
| 13 | M (F) | U2 small nuclear ribonucleoprotein A' | polymer | 255 | 28456.6 | 1 | UniProt (P09661) Pfam (PF14580) | Homo sapiens (Human) | U2 snRNP A' |
| 14 | N (G) | U2 small nuclear ribonucleoprotein B'' | polymer | 225 | 25524.4 | 1 | UniProt (P08579) Pfam (PF00076) | Homo sapiens (Human) | U2 snRNP B'' |
| 15 | O (a) | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 1 | UniProt (P62316) Pfam (PF01423) | Homo sapiens (Human) | Sm-D2,snRNP core protein D2 |
| 16 | P (b) | Small nuclear ribonucleoprotein F | polymer | 86 | 9734.2 | 1 | UniProt (P62306) Pfam (PF01423) | Homo sapiens (Human) | snRNP-F,Sm protein F,SmF |
| 17 | Q (c) | Small nuclear ribonucleoprotein E | polymer | 92 | 10817.6 | 1 | UniProt (P62304) Pfam (PF01423) | Homo sapiens (Human) | snRNP-E,Sm protein E,SmE |
| 18 | R (d) | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 1 | UniProt (P62308) Pfam (PF01423) | Homo sapiens (Human) | snRNP-G,Sm protein G,SmG |
| 19 | S (e) | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 1 | UniProt (P62318) Pfam (PF01423) | Homo sapiens (Human) | Sm-D3,snRNP core protein D3 |
| 20 | T (f) | Small nuclear ribonucleoprotein-associated proteins B and B' | polymer | 240 | 24642.1 | 1 | UniProt (P14678) Pfam (PF01423) | Homo sapiens (Human) | snRNP-B,Sm protein B/B',SmB/B' |
| 21 | U (g) | Small nuclear ribonucleoprotein Sm D1 | polymer | 119 | 13310.7 | 1 | UniProt (P62314) Pfam (PF01423) | Homo sapiens (Human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 22 | V (1) | [(2~{S},3~{S},4~{E},6~{S},7~{R},10~{R})-3,7-dimethyl-2-[(2~{E},4~{E},6~{R})-6-methyl-6-oxidanyl-7-[(2~{R},3~{R})-3-[(2~{R},3~{S})-3-oxidanylpentan-2-yl]oxiran-2-yl]hepta-2,4-dien-2-yl]-7,10-bis(oxidanyl)-12-oxidanylidene-1-oxacyclododec-4-en-6-yl] 4-cycloheptylpiperazine-1-carboxylate | non-polymer | 719.0 | 1 | Chemie (9B0) PubChem (73092121) PubChem (91532103) PubChem (131856485) PubChem (134817205) PubChem (140528348) PubChem (156446607) PubChem (160634551) PubChem (163779673) PubChem (168300439) PubChem (171636515) PubChem (23069885) PubChem (59459710) PubChem (11765422) PubChem (163779672) PubChem (173887426) PubChem (16202132) | |||
| 23 | W, X, Y, Z (6, C) | ZINC ION | non-polymer | 65.4 | 4 | Chemie (ZN) |
Sequence modifications
E: 1 - 1032 (UniProt: A0A0C4DG89)
| PDB | External Database | Details |
|---|---|---|
| Met -19 | - | initiating methionine |
| Ala -18 | - | expression tag |
| Ser -17 | - | expression tag |
| Asp -16 | - | expression tag |
| Tyr -15 | - | expression tag |
| Lys -14 | - | expression tag |
| Asp -13 | - | expression tag |
| Asp -12 | - | expression tag |
| Asp -11 | - | expression tag |
| Asp -10 | - | expression tag |
| Lys -9 | - | expression tag |
| Ala -8 | - | expression tag |
| Ser -7 | - | expression tag |
| Asp -6 | - | expression tag |
| Glu -5 | - | expression tag |
| Val -4 | - | expression tag |
| Asp -3 | - | expression tag |
| Ala -2 | - | expression tag |
| Gly -1 | - | expression tag |
| Thr 0 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 21 |
| Total formula weight | 1060834.2 | |
| Non-Polymers* | Number of molecules | 5 |
| Total formula weight | 980.6 | |
| All* | Total formula weight | 1061814.8 |
