9FMD
Integrative model of the human post-catalytic spliceosome (P-complex)
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 | 1 | PRKR-interacting protein 1 | polymer | 184 | 21040.2 | 1 | UniProt (Q9H875) Pfam (PF06658) In PDB | Homo sapiens (human) | |
| 2 | 2 | U2 snRNA | polymer | 187 | 59825.2 | 1 | Homo sapiens (human) | ||
| 3 | 3 | Splicing factor ESS-2 homolog | polymer | 476 | 52640.0 | 1 | UniProt (Q96DF8) Pfam (PF09751) In PDB | Homo sapiens (human) | DiGeorge syndrome critical region 13,DiGeorge syndrome critical region 14,DiGeorge syndrome protein H,DGS-H,Protein ES2 |
| 4 | 32 | Protein FAM32A | polymer | 112 | 13213.5 | 1 | UniProt (Q9Y421) Pfam (PF08555) In PDB | Homo sapiens (human) | Ovarian tumor-associated gene 12,OTAG-12 |
| 5 | 5 | U5 snRNA | polymer | 116 | 36908.7 | 1 | Homo sapiens (human) | ||
| 6 | 50 | Protein FAM50A | polymer | 339 | 40319.7 | 1 | UniProt (Q14320) Pfam (PF04921) In PDB | Homo sapiens (human) | Protein HXC-26,Protein XAP-5 |
| 7 | 56 | STING ER exit protein | polymer | 222 | 25669.7 | 1 | UniProt (Q9H5V9) In PDB | Homo sapiens (human) | STEEP |
| 8 | 6 | U6 snRNA | polymer | 106 | 34098.3 | 1 | Homo sapiens (human) | ||
| 9 | 7 | Eukaryotic initiation factor 4A-III | polymer | 411 | 46931.0 | 1 | UniProt (P38919) Pfam (PF00270) Pfam (PF00271) In PDB | Homo sapiens (human) | eIF4A-III,ATP-dependent RNA helicase DDX48,ATP-dependent RNA helicase eIF4A-3,DEAD box protein 48,Eukaryotic initiation factor 4A-like NUK-34,Eukaryotic translation initiation factor 4A isoform 3,Nuclear matrix protein 265,hNMP 265 |
| 10 | 8 | RNA-binding protein 8A | polymer | 174 | 19925.1 | 1 | UniProt (Q9Y5S9) Pfam (PF00076) In PDB | Homo sapiens (human) | Binder of OVCA1-1,BOV-1,RNA-binding motif protein 8A,RNA-binding protein Y14,Ribonucleoprotein RBM8A |
| 11 | 9 | Protein mago nashi homolog | polymer | 146 | 17189.6 | 1 | UniProt (P61326) Pfam (PF02792) In PDB | Homo sapiens (human) | |
| 12 | A | Pre-mRNA-processing-splicing factor 8 | polymer | 2335 | 273974.3 | 1 | UniProt (Q6P2Q9) Pfam (PF08083) Pfam (PF10598) Pfam (PF10597) Pfam (PF10596) Pfam (PF12134) Pfam (PF01398) Pfam (PF08084) Pfam (PF08082) In PDB | Homo sapiens (human) | 220 kDa U5 snRNP-specific protein,PRP8 homolog,Splicing factor Prp8,p220 |
| 13 | B | U5 small nuclear ribonucleoprotein 200 kDa helicase | polymer | 2136 | 244823.4 | 1 | UniProt (O75643) Pfam (PF21188) Pfam (PF18149) Pfam (PF00270) Pfam (PF00271) Pfam (PF02889) In PDB | Homo sapiens (human) | Activating signal cointegrator 1 complex subunit 3-like 1,BRR2 homolog,U5 snRNP-specific 200 kDa protein,U5-200KD |
| 14 | 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) In PDB | Homo sapiens (human) | Elongation factor Tu GTP-binding domain-containing protein 2,SNU114 homolog,hSNU114,U5 snRNP-specific protein,116 kDa,U5-116 kDa |
| 15 | D | Pre-mRNA-splicing factor ISY1 homolog | polymer | 285 | 33046.3 | 1 | UniProt (Q9ULR0) Pfam (PF06246) In PDB | Homo sapiens (human) | |
| 16 | E | U5 small nuclear ribonucleoprotein 40 kDa protein | polymer | 357 | 39359.5 | 1 | UniProt (Q96DI7) Pfam (PF00400) In PDB | Homo sapiens (human) | U5-40K,38 kDa-splicing factor,Prp8-binding protein,hPRP8BP,U5 snRNP-specific 40 kDa protein,WD repeat-containing protein 57 |
| 17 | EX | Exon | polymer | 14 | 4437.7 | 1 | Human adenovirus 2 | ||
| 18 | F | Splicing factor Cactin | polymer | 758 | 88860.1 | 1 | UniProt (Q8WUQ7) Pfam (PF10312) Pfam (PF09732) In PDB | Homo sapiens (human) | Renal carcinoma antigen NY-REN-24 |
| 19 | H | Pre-mRNA-splicing factor CWC22 homolog | polymer | 908 | 105646.6 | 1 | UniProt (Q9HCG8) Pfam (PF02854) Pfam (PF02847) In PDB | Homo sapiens (human) | Nucampholin homolog,fSAPb |
| 20 | I | Pre-mRNA-splicing factor SYF1 | polymer | 855 | 100148.7 | 1 | UniProt (Q9HCS7) Pfam (PF13181) In PDB | Homo sapiens (human) | Protein HCNP,XPA-binding protein 2 |
| 21 | IN | INTRON | polymer | 113 | 27772.0 | 1 | Human adenovirus 2 | ||
| 22 | J | Crooked neck-like protein 1 | polymer | 848 | 100610.0 | 1 | UniProt (Q9BZJ0) Pfam (PF02184) In PDB | Homo sapiens (human) | Crooked neck homolog,hCrn |
| 23 | K | Pre-mRNA-splicing factor SPF27 | polymer | 225 | 26163.4 | 1 | UniProt (O75934) Pfam (PF05700) In PDB | Homo sapiens (human) | Breast carcinoma-amplified sequence 2,DNA amplified in mammary carcinoma 1 protein,Spliceosome-associated protein SPF 27 |
| 24 | L | Cell division cycle 5-like protein | polymer | 802 | 92406.9 | 1 | UniProt (Q99459) Pfam (PF13921) Pfam (PF11831) In PDB | Homo sapiens (human) | Cdc5-like protein,Pombe cdc5-related protein |
| 25 | M | Pre-mRNA-splicing factor SYF2 | polymer | 243 | 28780.5 | 1 | UniProt (O95926) Pfam (PF08231) In PDB | Homo sapiens (human) | CCNDBP1-interactor,p29 |
| 26 | N | Protein BUD31 homolog | polymer | 144 | 17032.8 | 1 | UniProt (P41223) Pfam (PF01125) In PDB | Homo sapiens (human) | Protein EDG-2,Protein G10 homolog |
| 27 | NO | Nitric oxide synthase-interacting protein | polymer | 301 | 33224.1 | 1 | UniProt (Q9Y314) Pfam (PF15906) In PDB | Homo sapiens (human) | E3 ubiquitin-protein ligase NOSIP,RING-type E3 ubiquitin transferase NOSIP,eNOS-interacting protein |
| 28 | O | Pre-mRNA-splicing factor RBM22 | polymer | 420 | 46959.6 | 1 | UniProt (Q9NW64) Pfam (PF21369) Pfam (PF00076) In PDB | Homo sapiens (human) | RNA-binding motif protein 22,Zinc finger CCCH domain-containing protein 16 |
| 29 | P | Spliceosome-associated protein CWC15 homolog | polymer | 229 | 26674.4 | 1 | UniProt (Q9P013) Pfam (PF04889) In PDB | Homo sapiens (human) | |
| 30 | Q | Intron-binding protein aquarius | polymer | 1485 | 171502.5 | 1 | UniProt (O60306) Pfam (PF16399) Pfam (PF21143) Pfam (PF21144) Pfam (PF13086) Pfam (PF13087) In PDB | Homo sapiens (human) | Intron-binding protein of 160 kDa,IBP160 |
| 31 | R | SNW domain-containing protein 1 | polymer | 536 | 61770.6 | 1 | UniProt (Q13573) Pfam (PF02731) In PDB | Homo sapiens (human) | Nuclear protein SkiP,Nuclear receptor coactivator NCoA-62,Ski-interacting protein |
| 32 | S | Peptidyl-prolyl cis-trans isomerase-like 1 | polymer | 166 | 18257.8 | 1 | UniProt (Q9Y3C6) Pfam (PF00160) In PDB | Homo sapiens (human) | PPIase,Rotamase PPIL1 |
| 33 | SR | Serine/arginine repetitive matrix protein 2 | polymer | 2752 | 300255.3 | 1 | UniProt (Q9UQ35) Pfam (PF08312) In PDB | Homo sapiens (human) | 300 kDa nuclear matrix antigen,Serine/arginine-rich splicing factor-related nuclear matrix protein of 300 kDa,Ser/Arg-related nuclear matrix protein of 300 kDa,Splicing coactivator subunit SRm300,Tax-responsive enhancer element-binding protein 803,TaxREB803 |
| 34 | T | Pleiotropic regulator 1 | polymer | 514 | 57280.8 | 1 | UniProt (O43660) Pfam (PF00400) In PDB | Homo sapiens (human) | |
| 35 | U | Pre-mRNA-splicing factor SLU7 | polymer | 586 | 68510.8 | 1 | UniProt (O95391) Pfam (PF11708) In PDB | Homo sapiens (human) | hSlu7 |
| 36 | V | ATP-dependent RNA helicase DHX8 | polymer | 1220 | 139522.3 | 1 | UniProt (Q14562) Pfam (PF00575) Pfam (PF00270) Pfam (PF00271) Pfam (PF04408) Pfam (PF21010) Pfam (PF07717) In PDB | Homo sapiens (human) | DEAH box protein 8,RNA helicase HRH1 |
| 37 | W | Pre-mRNA-processing factor 17 | polymer | 579 | 65612.2 | 1 | UniProt (O60508) Pfam (PF00400) In PDB | Homo sapiens (human) | Cell division cycle 40 homolog,EH-binding protein 3,Ehb3,PRP17 homolog,hPRP17 |
| 38 | X | Splicing regulator SDE2 | polymer | 451 | 49818.0 | 1 | UniProt (Q6IQ49) Pfam (PF22781) Pfam (PF22782) Pfam (PF13297) In PDB | Homo sapiens (human) | Replication stress response regulator SDE2 |
| 39 | Z | Coiled-coil domain-containing protein 12 | polymer | 166 | 19223.8 | 1 | UniProt (Q8WUD4) Pfam (PF08315) In PDB | Homo sapiens (human) | |
| 40 | a, h | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 2 | UniProt (P62318) Pfam (PF01423) In PDB | Homo sapiens (human) | Sm-D3,snRNP core protein D3 |
| 41 | b, i | Small nuclear ribonucleoprotein-associated proteins B and B' | polymer | 240 | 24642.1 | 2 | UniProt (P14678) Pfam (PF01423) In PDB | Homo sapiens (human) | snRNP-B,Sm protein B/B',SmB/B' |
| 42 | c, j | Small nuclear ribonucleoprotein Sm D1 | polymer | 119 | 13310.7 | 2 | UniProt (P62314) Pfam (PF01423) In PDB | Homo sapiens (human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 43 | d, k | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 2 | UniProt (P62316) Pfam (PF01423) In PDB | Homo sapiens (human) | Sm-D2,snRNP core protein D2 |
| 44 | e, l | Small nuclear ribonucleoprotein E | polymer | 92 | 10817.6 | 2 | UniProt (P62304) Pfam (PF01423) In PDB | Homo sapiens (human) | snRNP-E,Sm protein E,SmE |
| 45 | f, m | Small nuclear ribonucleoprotein F | polymer | 86 | 9734.2 | 2 | UniProt (P62306) Pfam (PF01423) In PDB | Homo sapiens (human) | snRNP-F,Sm protein F,SmF |
| 46 | g, n | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 2 | UniProt (P62308) Pfam (PF01423) In PDB | Homo sapiens (human) | snRNP-G,Sm protein G,SmG |
| 47 | o | U2 small nuclear ribonucleoprotein A' | polymer | 255 | 28456.6 | 1 | UniProt (P09661) Pfam (PF14580) In PDB | Homo sapiens (human) | U2 snRNP A' |
| 48 | p | U2 small nuclear ribonucleoprotein B'' | polymer | 225 | 25524.4 | 1 | UniProt (P08579) Pfam (PF00076) In PDB | Homo sapiens (human) | U2 snRNP B'' |
| 49 | q, r, s, t | Pre-mRNA-processing factor 19 | polymer | 504 | 55245.5 | 4 | UniProt (Q9UMS4) Pfam (PF00400) Pfam (PF04564) Pfam (PF08606) In PDB | Homo sapiens (human) | Nuclear matrix protein 200,PRP19/PSO4 homolog,hPso4,RING-type E3 ubiquitin transferase PRP19,Senescence evasion factor |
| 50 | w | Peptidylprolyl isomerase domain and WD repeat-containing protein 1 | polymer | 646 | 73679.9 | 1 | UniProt (Q96BP3) Pfam (PF00400) Pfam (PF00160) In PDB | Homo sapiens (human) | Spliceosome-associated cyclophilin |
| 51 | x | Splicing factor C9orf78 | polymer | 289 | 33751.1 | 1 | UniProt (Q9NZ63) Pfam (PF07052) In PDB | Homo sapiens (human) | Hepatocellular carcinoma-associated antigen 59 |
| 52 | y | Peptidyl-prolyl cis-trans isomerase E | polymer | 301 | 33475.8 | 1 | UniProt (Q9UNP9) Pfam (PF00076) Pfam (PF00160) In PDB | Homo sapiens (human) | PPIase E,Cyclophilin E,Cyclophilin-33,Rotamase E |
| 53 | z | NF-kappa-B-activating protein | polymer | 415 | 47252.7 | 1 | UniProt (Q8N5F7) Pfam (PF15692) Pfam (PF06047) In PDB | Homo sapiens (human) | |
| 54 | 6, 7 | MAGNESIUM ION | non-polymer | 24.3 | 6 | Chemie (MG) | |||
| 55 | 6 | POTASSIUM ION | non-polymer | 39.1 | 1 | Chemie (K) | |||
| 56 | 7 | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 1 | Chemie (ATP) | |||
| 57 | C | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 58 | N, O | ZINC ION | non-polymer | 65.4 | 6 | Chemie (ZN) | |||
| 59 | U | INOSITOL HEXAKISPHOSPHATE | non-polymer | 660.0 | 1 | Chemie (IHP) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 63 |
| Total formula weight | 3371128.2 | |
| Non-Polymers* | Number of molecules | 16 |
| Total formula weight | 2267.8 | |
| All* | Total formula weight | 3373396.0 |
