9XTT
Human minor spliceosome branching-completed C complex (after step-I)
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 (0) | MSE-U12_exon | polymer | 57 | 18256.9 | 1 | Homo sapiens | ||
| 2 | B (1) | MSE-U12_Intron | polymer | 277 | 88640.1 | 1 | Homo sapiens | ||
| 3 | C (2) | U12 snRNA | polymer | 150 | 48353.6 | 1 | Homo sapiens | ||
| 4 | D (4) | Peptidylprolyl isomerase domain and WD repeat-containing protein 1 | polymer | 646 | 73679.9 | 1 | UniProt (Q96BP3) Pfam (PF00400) Pfam (PF00160) | Homo sapiens (human) | Spliceosome-associated cyclophilin |
| 5 | E (5) | U5 snRNA | polymer | 117 | 37254.9 | 1 | GenBank (20330981) | Homo sapiens (human) | |
| 6 | F (6) | U6atac snRNA | polymer | 125 | 40395.8 | 1 | Homo sapiens | ||
| 7 | G (A) | Pre-mRNA-processing-splicing factor 8 | polymer | 2335 | 273974.3 | 1 | UniProt (Q6P2Q9) Pfam (PF12134) Pfam (PF01398) Pfam (PF08084) Pfam (PF08082) Pfam (PF08083) Pfam (PF10598) Pfam (PF10597) Pfam (PF10596) | Homo sapiens (human) | 220 kDa U5 snRNP-specific protein,PRP8 homolog,Splicing factor Prp8,p220 |
| 8 | H (B) | 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 |
| 9 | I (C) | 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) | Activating signal cointegrator 1 complex subunit 3-like 1,BRR2 homolog,U5 snRNP-specific 200 kDa protein,U5-200KD |
| 10 | J (D) | U5 small nuclear ribonucleoprotein 40 kDa protein | polymer | 357 | 39359.5 | 1 | UniProt (Q96DI7) Pfam (PF00400) | Homo sapiens (human) | U5 snRNP 40 kDa protein,U5-40K,38 kDa-splicing factor,Prp8-binding protein,hPRP8BP,U5 snRNP-specific 40 kDa protein,WD repeat-containing protein 57 |
| 11 | K (E) | Cell division cycle 5-like protein | polymer | 802 | 92406.9 | 1 | UniProt (Q99459) Pfam (PF13921) Pfam (PF11831) | Homo sapiens (human) | Cdc5-like protein,Pombe cdc5-related protein |
| 12 | L (F) | Pre-mRNA-splicing factor SYF1 | polymer | 855 | 100148.7 | 1 | UniProt (Q9HCS7) Pfam (PF23233) Pfam (PF23220) Pfam (PF23231) | Homo sapiens (human) | Protein HCNP,XPA-binding protein 2 |
| 13 | M (G) | Crooked neck-like protein 1 | polymer | 848 | 100610.0 | 1 | UniProt (Q9BZJ0) Pfam (PF23231) | Homo sapiens (human) | Crooked neck homolog,hCrn |
| 14 | N (H) | Coiled-coil domain-containing protein 12 | polymer | 166 | 19223.8 | 1 | UniProt (Q8WUD4) Pfam (PF08315) | Homo sapiens (human) | |
| 15 | O (I) | Pre-mRNA-splicing factor ISY1 homolog | polymer | 285 | 33046.3 | 1 | UniProt (Q9ULR0) Pfam (PF06246) | Homo sapiens (human) | |
| 16 | P (J) | SNW domain-containing protein 1 | polymer | 536 | 61690.7 | 1 | UniProt (Q13573) Pfam (PF02731) | Homo sapiens (human) | Nuclear protein SkiP,Nuclear receptor coactivator NCoA-62,Ski-interacting protein |
| 17 | Q (K) | Pleiotropic regulator 1 | polymer | 514 | 57280.8 | 1 | UniProt (O43660) Pfam (PF00400) | Homo sapiens (human) | |
| 18 | R (L) | RNA-binding protein 48 | polymer | 367 | 41878.5 | 1 | UniProt (Q5RL73) | Homo sapiens (human) | |
| 19 | S (M) | Armadillo repeat-containing protein 7 | polymer | 198 | 21946.0 | 1 | UniProt (Q9H6L4) Pfam (PF00514) | Homo sapiens (human) | |
| 20 | T (N) | Spliceosome-associated protein CWC15 homolog | polymer | 229 | 26674.4 | 1 | UniProt (Q9P013) Pfam (PF04889) | Homo sapiens (human) | |
| 21 | U (O) | Peptidyl-prolyl cis-trans isomerase-like 1 | polymer | 166 | 18257.8 | 1 | UniProt (Q9Y3C6) Pfam (PF00160) | Homo sapiens (human) | PPIase,Rotamase PPIL1 |
| 22 | V (P) | Peptidyl-prolyl cis-trans isomerase E | polymer | 301 | 33475.8 | 1 | UniProt (Q9UNP9) Pfam (PF00076) Pfam (PF00160) | Homo sapiens (human) | PPIase E,Cyclophilin E,Cyclophilin-33,Rotamase E |
| 23 | W (Q) | RNA helicase aquarius | polymer | 1485 | 171502.5 | 1 | UniProt (O60306) Pfam (PF16399) Pfam (PF21143) Pfam (PF21144) Pfam (PF13086) Pfam (PF13087) | Homo sapiens (human) | Intron-binding protein of 160 kDa,IBP160 |
| 24 | X (R) | Pre-mRNA-splicing factor CWC25 homolog | polymer | 425 | 49769.9 | 1 | UniProt (Q9NXE8) Pfam (PF10197) Pfam (PF12542) | Homo sapiens (human) | Coiled-coil domain-containing protein 49,Spliceosome-associated protein homolog CWC25 |
| 25 | Y (S) | Pre-mRNA-splicing factor SLU7 | polymer | 586 | 68510.8 | 1 | UniProt (O95391) Pfam (PF11708) | Homo sapiens (human) | hSlu7 |
| 26 | Z (T) | Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP16 | polymer | 1227 | 140662.5 | 1 | UniProt (Q92620) Pfam (PF00270) Pfam (PF00271) Pfam (PF04408) Pfam (PF21010) Pfam (PF07717) | Homo sapiens (human) | ATP-dependent RNA helicase DHX38,DEAH box protein 38 |
| 27 | AA (U) | Serine/arginine repetitive matrix protein 2 | polymer | 2752 | 300255.3 | 1 | UniProt (Q9UQ35) Pfam (PF08312) | Homo sapiens (human) | 300 kDa nuclear matrix antigen,Serine/arginine-rich splicing factor-related nuclear matrix protein of 300 kDa,SR-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 |
| 28 | BA (V) | Pre-mRNA-splicing factor CWC22 homolog | polymer | 908 | 105646.6 | 1 | UniProt (Q9HCG8) Pfam (PF02854) Pfam (PF02847) | Homo sapiens (human) | Nucampholin homolog,fSAPb |
| 29 | CA (X) | Protein FRG1 | polymer | 258 | 29227.5 | 1 | UniProt (Q14331) Pfam (PF06229) | Homo sapiens (human) | FSHD region gene 1 protein |
| 30 | DA (X1) | Unknown polymer | polymer | 20 | 1720.1 | 1 | Homo sapiens (human) | ||
| 31 | EA (X2) | Unknown polymer | polymer | 18 | 1549.9 | 1 | Homo sapiens (human) | ||
| 32 | FA (X3) | Unknown polymer | polymer | 21 | 1805.2 | 1 | Homo sapiens (human) | ||
| 33 | GA (Y) | Splicing factor YJU2 | polymer | 345 | 39867.8 | 1 | UniProt (Q9BW85) Pfam (PF04502) | Homo sapiens (human) | Coiled-coil domain-containing protein 94 |
| 34 | HA (Z) | WD repeat-containing protein 70 | polymer | 654 | 73306.2 | 1 | UniProt (Q9NW82) Pfam (PF00400) | Homo sapiens (human) | |
| 35 | IA, PA (a, h) | Small nuclear ribonucleoprotein-associated proteins B and B' | polymer | 240 | 24642.1 | 2 | UniProt (P14678) Pfam (PF01423) | Homo sapiens (human) | snRNP-B,Sm protein B/B',Sm-B/B',SmB/B' |
| 36 | JA, QA (b, i) | Small nuclear ribonucleoprotein Sm D1 | polymer | 119 | 13310.7 | 2 | UniProt (P62314) Pfam (PF01423) | Homo sapiens (human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 37 | KA, RA (c, j) | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 2 | UniProt (P62316) Pfam (PF01423) | Homo sapiens (human) | Sm-D2,snRNP core protein D2 |
| 38 | LA, SA (d, k) | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 2 | UniProt (P62318) Pfam (PF01423) | Homo sapiens (human) | Sm-D3,snRNP core protein D3 |
| 39 | MA, TA (e, l) | Small nuclear ribonucleoprotein E | polymer | 92 | 10817.6 | 2 | UniProt (P62304) Pfam (PF01423) | Homo sapiens (human) | snRNP-E,Sm protein E,Sm-E,SmE |
| 40 | NA, UA (f, m) | Small nuclear ribonucleoprotein F | polymer | 86 | 9734.2 | 2 | UniProt (P62306) Pfam (PF01423) | Homo sapiens (human) | snRNP-F,Sm protein F,Sm-F,SmF |
| 41 | OA, VA (g, n) | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 2 | UniProt (P62308) Pfam (PF01423) | Homo sapiens (human) | snRNP-G,Sm protein G,Sm-G,SmG |
| 42 | WA, XA, YA, ZA (q, r, s, t) | Pre-mRNA-processing factor 19 | polymer | 504 | 55245.5 | 4 | UniProt (Q9UMS4) Pfam (PF04564) Pfam (PF08606) Pfam (PF24814) | Homo sapiens (human) | Nuclear matrix protein 200,PRP19/PSO4 homolog,hPso4,RING-type E3 ubiquitin transferase PRP19,Senescence evasion factor |
| 43 | AB (u) | Pre-mRNA-splicing factor SPF27 | polymer | 225 | 26163.4 | 1 | UniProt (O75934) Pfam (PF05700) | Homo sapiens (human) | Breast carcinoma-amplified sequence 2,DNA amplified in mammary carcinoma 1 protein,Spliceosome-associated protein SPF 27 |
| 44 | BB (v) | Eukaryotic initiation factor 4A-III | polymer | 411 | 46931.0 | 1 | UniProt (P38919) Pfam (PF00270) Pfam (PF00271) | Homo sapiens (human) | eIF-4A-III,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,NMP 265,hNMP 265 |
| 45 | CB (w) | Protein mago nashi homolog | polymer | 146 | 17189.6 | 1 | UniProt (P61326) Pfam (PF02792) | Homo sapiens (human) | |
| 46 | DB (x) | RNA-binding protein 8A | polymer | 174 | 19925.1 | 1 | UniProt (Q9Y5S9) Pfam (PF00076) | Homo sapiens (human) | Binder of OVCA1-1,BOV-1,RNA-binding motif protein 8A,RNA-binding protein Y14,Ribonucleoprotein RBM8A |
| 47 | EB (z) | Multiple myeloma tumor-associated protein 2 | polymer | 263 | 29486.1 | 1 | UniProt (Q9BU76) Pfam (PF10159) | Homo sapiens (human) | hMMTAG2 |
| 48 | FB, GB, HB, IB, LB... (6, B, C, v) | MAGNESIUM ION | non-polymer | 24.3 | 9 | Chemie (MG) PubChem (888) | |||
| 49 | JB, KB (6) | POTASSIUM ION | non-polymer | 39.1 | 2 | Chemie (K) PubChem (813) | |||
| 50 | NB (A) | INOSITOL HEXAKISPHOSPHATE | non-polymer | 660.0 | 1 | Chemie (IHP) | |||
| 51 | OB (B) | GUANOSINE-5'-TRIPHOSPHATE | non-polymer | 523.2 | 1 | Chemie (GTP) | |||
| 52 | QB, RB (C) | ADENOSINE-5'-DIPHOSPHATE | non-polymer | 427.2 | 2 | Chemie (ADP) | |||
| 53 | TB, UB (S, Y) | ZINC ION | non-polymer | 65.4 | 2 | Chemie (ZN) PubChem (32051) | |||
| 54 | WB (v) | ADENOSINE-5'-TRIPHOSPHATE | non-polymer | 507.2 | 1 | Chemie (ATP) |
Sequence modifications
T: 1 - 1227 (UniProt: Q92620)
Y: 1 - 323 (UniProt: Q9BW85)
| PDB | External Database | Details |
|---|---|---|
| Ala 561 | Lys 561 | engineered mutation |
| PDB | External Database | Details |
|---|---|---|
| Gln 324 | - | insertion |
| Arg 325 | - | insertion |
| Gln 326 | - | insertion |
| Ala 327 | - | insertion |
| His 328 | - | insertion |
| Ala 329 | - | insertion |
| Asp 330 | - | insertion |
| Phe 331 | - | insertion |
| Glu 332 | - | insertion |
| Ala 333 | - | insertion |
| Met 334 | - | insertion |
| Leu 335 | - | insertion |
| Arg 336 | - | insertion |
| Gln 337 | - | insertion |
| His 338 | - | insertion |
| Arg 339 | - | insertion |
| Leu 340 | - | insertion |
| Ser 341 | - | insertion |
| Glu 342 | - | insertion |
| Glu 343 | - | insertion |
| Glu 344 | - | insertion |
| Arg 345 | - | insertion |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 57 |
| Total formula weight | 3114450.3 | |
| Non-Polymers* | Number of molecules | 18 |
| Total formula weight | 2972.6 | |
| All* | Total formula weight | 3117422.8 |
