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 | H | U2 snRNA | polymer | 188 | 60186.4 | 1 | GenBank (340097) | Homo sapiens (Human) | |
| 2 | 1 | Splicing factor 3B subunit 1 | polymer | 1304 | 146024.9 | 1 | UniProt (O75533) Pfam (PF08920) Pfam (PF22646) In PDB | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 155 kDa subunit,SF3b155,Spliceosome-associated protein 155,SAP 155 |
| 3 | 2 | Splicing factor 3B subunit 2 | polymer | 895 | 100377.8 | 1 | UniProt (Q13435) Pfam (PF02037) Pfam (PF04037) Pfam (PF04046) In PDB | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 145 kDa subunit,SF3b145,Spliceosome-associated protein 145,SAP 145 |
| 4 | 3 | Splicing factor 3B subunit 3 | polymer | 1217 | 135718.8 | 1 | UniProt (Q15393) Pfam (PF10433) Pfam (PF03178) In PDB | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 130 kDa subunit,SF3b130,STAF130,Spliceosome-associated protein 130,SAP 130 |
| 5 | 4 | Splicing factor 3B subunit 4 | polymer | 424 | 44436.6 | 1 | UniProt (Q15427) Pfam (PF00076) In PDB | Homo sapiens (Human) | Pre-mRNA-splicing factor SF3b 49 kDa subunit,Spliceosome-associated protein 49,SAP 49 |
| 6 | 5 | Splicing factor 3B subunit 5 | polymer | 86 | 10149.4 | 1 | UniProt (Q9BWJ5) Pfam (PF07189) In PDB | Homo sapiens (Human) | SF3b5,Pre-mRNA-splicing factor SF3b 10 kDa subunit |
| 7 | 6 | PHD finger-like domain-containing protein 5A | polymer | 110 | 12427.5 | 1 | UniProt (Q7RTV0) Pfam (PF03660) In PDB | Homo sapiens (Human) | PHD finger-like domain protein 5A,Splicing factor 3B-associated 14 kDa protein,SF3b14b |
| 8 | A | Splicing factor 3A subunit 1 | polymer | 793 | 88991.1 | 1 | UniProt (Q15459) Pfam (PF01805) Pfam (PF12230) Pfam (PF00240) In PDB | Homo sapiens (Human) | SF3a120,Spliceosome-associated protein 114,SAP 114 |
| 9 | B | Splicing factor 3A subunit 2 | polymer | 464 | 49327.4 | 1 | UniProt (Q15428) Pfam (PF12874) Pfam (PF16835) In PDB | Homo sapiens (Human) | SF3a66,Spliceosome-associated protein 62,SAP 62 |
| 10 | C | Splicing factor 3A subunit 3 | polymer | 501 | 58934.8 | 1 | UniProt (Q12874) Pfam (PF12108) Pfam (PF16837) Pfam (PF13297) Pfam (PF11931) In PDB | Homo sapiens (Human) | SF3a60,Spliceosome-associated protein 61,SAP 61 |
| 11 | D | HIV Tat-specific factor 1 | polymer | 755 | 85966.0 | 1 | UniProt (O43719) Pfam (PF00076) In PDB | Homo sapiens (Human) | Tat-SF1 |
| 12 | E | RNA helicase | polymer | 1052 | 119807.7 | 1 | UniProt (A0A0C4DG89) Pfam (PF00270) Pfam (PF00271) UniProt (by SIFTS) (Q7L014) In PDB | Homo sapiens (Human) | |
| 13 | F | U2 small nuclear ribonucleoprotein A' | polymer | 255 | 28456.6 | 1 | UniProt (P09661) Pfam (PF14580) In PDB | Homo sapiens (Human) | U2 snRNP A' |
| 14 | G | U2 small nuclear ribonucleoprotein B'' | polymer | 225 | 25524.4 | 1 | UniProt (P08579) Pfam (PF00076) In PDB | Homo sapiens (Human) | U2 snRNP B'' |
| 15 | a | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 1 | UniProt (P62316) Pfam (PF01423) In PDB | Homo sapiens (Human) | Sm-D2,snRNP core protein D2 |
| 16 | b | Small nuclear ribonucleoprotein F | polymer | 86 | 9734.2 | 1 | UniProt (P62306) Pfam (PF01423) In PDB | Homo sapiens (Human) | snRNP-F,Sm protein F,SmF |
| 17 | c | Small nuclear ribonucleoprotein E | polymer | 92 | 10817.6 | 1 | UniProt (P62304) Pfam (PF01423) In PDB | Homo sapiens (Human) | snRNP-E,Sm protein E,SmE |
| 18 | d | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 1 | UniProt (P62308) Pfam (PF01423) In PDB | Homo sapiens (Human) | snRNP-G,Sm protein G,SmG |
| 19 | e | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 1 | UniProt (P62318) Pfam (PF01423) In PDB | Homo sapiens (Human) | Sm-D3,snRNP core protein D3 |
| 20 | f | Small nuclear ribonucleoprotein-associated proteins B and B' | polymer | 240 | 24642.1 | 1 | UniProt (P14678) Pfam (PF01423) In PDB | Homo sapiens (Human) | snRNP-B,Sm protein B/B',SmB/B' |
| 21 | g | Small nuclear ribonucleoprotein Sm D1 | polymer | 119 | 13310.7 | 1 | UniProt (P62314) Pfam (PF01423) In PDB | Homo sapiens (Human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 22 | 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) | |||
| 23 | 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 |
