5ZWM
Cryo-EM structure of the yeast pre-B complex at an average resolution of 3.4~4.6 angstrom (tri-snRNP and U2 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 | Pre-mRNA-splicing factor 8 | polymer | 2413 | 279867.5 | 1 | UniProt (P33334) Pfam (PF08083) Pfam (PF10598) Pfam (PF10597) Pfam (PF10596) Pfam (PF12134) Pfam (PF08084) Pfam (PF08082) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 2 | K | U4/U6 small nuclear ribonucleoprotein PRP4 | polymer | 465 | 52507.0 | 1 | UniProt (P20053) Pfam (PF00400) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Pre-mRNA-processing protein 4 |
| 3 | L | Pre-mRNA-processing factor 31 | polymer | 494 | 56382.5 | 1 | UniProt (P49704) Pfam (PF01798) Pfam (PF09785) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 4 | N | Pre-mRNA-splicing factor 6 | polymer | 899 | 104370.1 | 1 | UniProt (P19735) Pfam (PF06424) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 5 | J | U4/U6 small nuclear ribonucleoprotein PRP3 | polymer | 469 | 55974.3 | 1 | UniProt (Q03338) Pfam (PF08572) Pfam (PF06544) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Pre-mRNA-splicing factor 3 |
| 6 | E | Spliceosomal protein DIB1 | polymer | 143 | 16798.4 | 1 | UniProt (Q06819) Pfam (PF02966) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 7 | M | 13 kDa ribonucleoprotein-associated protein | polymer | 126 | 13582.9 | 1 | UniProt (P39990) Pfam (PF01248) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Small nuclear ribonucleoprotein-associated protein 1 |
| 8 | C | Pre-mRNA-splicing factor SNU114 | polymer | 1008 | 114174.0 | 1 | UniProt (P36048) Pfam (PF16004) Pfam (PF00009) Pfam (PF03764) Pfam (PF00679) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | 114 kDa U5 small nuclear ribonucleoprotein component,Growth inhibitory protein 10 |
| 9 | z | U6 snRNA-associated Sm-like protein LSm8 | polymer | 109 | 12403.4 | 1 | UniProt (P47093) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 10 | q | U6 snRNA-associated Sm-like protein LSm2 | polymer | 95 | 11177.9 | 1 | UniProt (P38203) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Small nuclear ribonucleoprotein D homolog SNP3 |
| 11 | r | U6 snRNA-associated Sm-like protein LSm3 | polymer | 89 | 10039.3 | 1 | UniProt (P57743) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | SmX4 protein |
| 12 | x | U6 snRNA-associated Sm-like protein LSm6 | polymer | 86 | 9406.6 | 1 | UniProt (Q06406) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 13 | t | U6 snRNA-associated Sm-like protein LSm5 | polymer | 93 | 10433.0 | 1 | UniProt (P40089) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 14 | y | U6 snRNA-associated Sm-like protein LSm7 | polymer | 115 | 13027.0 | 1 | UniProt (P53905) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 15 | s | U6 snRNA-associated Sm-like protein LSm4 | polymer | 187 | 21298.1 | 1 | UniProt (P40070) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 16 | F | U6 snRNA | polymer | 112 | 35846.1 | 1 | Saccharomyces cerevisiae S288c | ||
| 17 | I | U4 snRNA | polymer | 160 | 51186.0 | 1 | Saccharomyces cerevisiae S288c | ||
| 18 | B | U5 snRNA | polymer | 214 | 68643.3 | 1 | Saccharomyces cerevisiae S288c | ||
| 19 | O | 66 kDa U4/U6.U5 small nuclear ribonucleoprotein component | polymer | 587 | 66544.0 | 1 | UniProt (Q12420) Pfam (PF19252) Pfam (PF03343) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 20 | d, S, l | Small nuclear ribonucleoprotein Sm D3 | polymer | 101 | 11240.1 | 3 | UniProt (P43321) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Sm-D3,snRNP core protein D3 |
| 21 | a, P, h | Small nuclear ribonucleoprotein-associated protein B | polymer | 196 | 22427.0 | 3 | UniProt (P40018) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | snRNP-B,Sm protein B,SmB |
| 22 | b, Q, m | Small nuclear ribonucleoprotein Sm D1 | polymer | 146 | 16296.8 | 3 | UniProt (Q02260) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Sm-D1,snRNP core protein D1 |
| 23 | c, R, n | Small nuclear ribonucleoprotein Sm D2 | polymer | 110 | 12876.1 | 3 | UniProt (Q06217) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Sm-D2,snRNP core protein D2 |
| 24 | e, T, i | Small nuclear ribonucleoprotein E | polymer | 94 | 10385.1 | 3 | UniProt (Q12330) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | snRNP-E,Sm protein E,SmE |
| 25 | f, U, j | Small nuclear ribonucleoprotein F | polymer | 86 | 9669.9 | 3 | UniProt (P54999) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | snRNP-F,Sm protein F,SmF |
| 26 | g, V, k | Small nuclear ribonucleoprotein G | polymer | 77 | 8490.8 | 3 | UniProt (P40204) Pfam (PF01423) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | snRNP-G,Sm protein G,SmG |
| 27 | D | Pre-mRNA-splicing helicase BRR2 | polymer | 2163 | 246470.3 | 1 | UniProt (P32639) Pfam (PF21188) Pfam (PF18149) Pfam (PF00270) Pfam (PF00271) Pfam (PF02889) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Protein Snu246 |
| 28 | G | Pre-mRNA-BPS | polymer | 44 | 13984.3 | 1 | Saccharomyces cerevisiae S288c | ||
| 29 | H | U2 snRNA | polymer | 1175 | 376267.4 | 1 | Saccharomyces cerevisiae S288c | ||
| 30 | o | U2 small nuclear ribonucleoprotein A' | polymer | 238 | 27232.3 | 1 | UniProt (Q08963) Pfam (PF14580) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | U2 snRNP A',Looks exceptionally like U2A protein 1 |
| 31 | p | U2 small nuclear ribonucleoprotein B'' | polymer | 111 | 12850.9 | 1 | UniProt (P40567) Pfam (PF13893) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | U2 snRNP B'' |
| 32 | 1 | U2 snRNP component HSH155 | polymer | 971 | 110166.7 | 1 | UniProt (P49955) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 33 | 2 | Cold sensitive U2 snRNA suppressor 1 | polymer | 436 | 50339.9 | 1 | UniProt (Q02554) Pfam (PF04037) Pfam (PF04046) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 34 | 3 | Pre-mRNA-splicing factor RSE1 | polymer | 1361 | 153956.8 | 1 | UniProt (Q04693) Pfam (PF10433) Pfam (PF03178) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | RNA splicing and ER to Golgi transport factor 1,Spliceosome-associated protein 130 |
| 35 | 4 | Protein HSH49 | polymer | 213 | 24534.2 | 1 | UniProt (Q99181) Pfam (PF00076) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 36 | 5 | Pre-mRNA-splicing factor RDS3 | polymer | 107 | 12283.6 | 1 | UniProt (Q06835) Pfam (PF03660) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Regulator of drug sensitivity 3 |
| 37 | 6 | RDS3 complex subunit 10 | polymer | 85 | 10045.4 | 1 | UniProt (P0C074) Pfam (PF07189) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Splicing factor 3b subunit |
| 38 | X | U2 snRNP component IST3 | polymer | 148 | 17121.1 | 1 | UniProt (P40565) Pfam (PF00076) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Increased sodium tolerance protein 3,U2 snRNP protein SNU17 |
| 39 | Y | Pre-mRNA-splicing factor CWC26 | polymer | 266 | 30529.1 | 1 | UniProt (P46947) Pfam (PF09736) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | Bud site selection protein 13,Complexed with CEF1 protein 26,Synthetic lethal with CLF1 protein 7 |
| 40 | Z | Pre-mRNA leakage protein 1 | polymer | 204 | 23685.7 | 1 | UniProt (Q07930) Pfam (PF00498) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 41 | u | Pre-mRNA-splicing factor PRP9 | polymer | 530 | 63126.4 | 1 | UniProt (P19736) Pfam (PF16958) Pfam (PF16837) Pfam (PF12171) Pfam (PF11931) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 42 | w | Pre-mRNA-splicing factor PRP21 | polymer | 280 | 33111.5 | 1 | UniProt (P32524) Pfam (PF01805) Pfam (PF12230) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 43 | v | Pre-mRNA-splicing factor PRP11 | polymer | 266 | 29962.8 | 1 | UniProt (Q07350) Pfam (PF12874) Pfam (PF16835) In PDB | Saccharomyces cerevisiae S288c (Baker's yeast) | |
| 44 | C | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 45 | C | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
| 46 | 5, u, v | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 57 |
| Total formula weight | 2513487.3 | |
| Non-Polymers* | Number of molecules | 8 |
| Total formula weight | 939.9 | |
| All* | Total formula weight | 2514427.2 |
