8QO9
Cryo-EM structure of a human spliceosomal B complex protomer
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 (B4) | 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 |
| 2 | B, RB (8, G) | Splicing factor 3A subunit 2 | polymer | 464 | 49327.4 | 2 | UniProt (Q15428) Pfam (PF12874) Pfam (PF16835) | Homo sapiens (human) | SF3a66,Spliceosome-associated protein 62,SAP 62 |
| 3 | C, SB (9, H) | Splicing factor 3A subunit 3 | polymer | 501 | 58934.8 | 2 | UniProt (Q12874) Pfam (PF12108) Pfam (PF16837) Pfam (PF13297) Pfam (PF11931) | Homo sapiens (human) | SF3a60,Spliceosome-associated protein 61,SAP 61 |
| 4 | D (B2) | 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 |
| 5 | E (B5) | 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 |
| 6 | F (2) | U2 snRNA | polymer | 188 | 60170.4 | 1 | GenBank (36516) | Homo sapiens (human) | |
| 7 | G (B3) | Splicing factor 3B subunit 3 | polymer | 1217 | 135718.8 | 1 | UniProt (Q15393) Pfam (PF10433) Pfam (PF03178) | Homo sapiens (human) | Pre-mRNA-splicing factor SF3b 130 kDa subunit,SF3b130,STAF130,Spliceosome-associated protein 130,SAP 130 |
| 8 | H (BP) | 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 |
| 9 | I (B1) | 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 |
| 10 | J (B6) | Splicing factor 3B subunit 6 | polymer | 125 | 14606.9 | 1 | UniProt (Q9Y3B4) Pfam (PF00076) | Homo sapiens (human) | Pre-mRNA branch site protein p14,SF3b 14 kDa subunit,SF3B14a,Spliceosome-associated protein,14-kDa,Splicing factor 3b,subunit 6,14kDa |
| 11 | K (62) | U6 snRNA-associated Sm-like protein LSm2 | polymer | 95 | 10847.5 | 1 | UniProt (Q9Y333) Pfam (PF01423) | Homo sapiens (human) | Protein G7b,Small nuclear ribonuclear protein D homolog,snRNP core Sm-like protein Sm-x5 |
| 12 | L (63) | U6 snRNA-associated Sm-like protein LSm3 | polymer | 102 | 11859.4 | 1 | UniProt (P62310) Pfam (PF01423) | Homo sapiens (human) | |
| 13 | M (64) | U6 snRNA-associated Sm-like protein LSm4 | polymer | 139 | 15375.8 | 1 | UniProt (Q9Y4Z0) Pfam (PF01423) | Homo sapiens (human) | Glycine-rich protein,GRP |
| 14 | N (65) | U6 snRNA-associated Sm-like protein LSm5 | polymer | 91 | 9945.4 | 1 | UniProt (Q9Y4Y9) Pfam (PF01423) | Homo sapiens (human) | |
| 15 | O (66) | U6 snRNA-associated Sm-like protein LSm6 | polymer | 80 | 9139.6 | 1 | UniProt (P62312) Pfam (PF01423) | Homo sapiens (human) | |
| 16 | P (67) | U6 snRNA-associated Sm-like protein LSm7 | polymer | 103 | 11617.4 | 1 | UniProt (Q9UK45) Pfam (PF01423) | Homo sapiens (human) | |
| 17 | Q (68) | U6 snRNA-associated Sm-like protein LSm8 | polymer | 96 | 10410.6 | 1 | UniProt (O95777) Pfam (PF01423) | Homo sapiens (human) | |
| 18 | BA, R, VA (5b, 2b, 4b) | Small nuclear ribonucleoprotein-associated proteins B and B' | polymer | 240 | 24642.1 | 3 | UniProt (P14678) Pfam (PF01423) | Homo sapiens (human) | snRNP-B,Sm protein B/B',SmB/B' |
| 19 | FA, QA, S (51, 21, 41) | Small nuclear ribonucleoprotein Sm D1 | polymer | 119 | 13310.7 | 3 | UniProt (P62314) Pfam (PF01423) | Homo sapiens (human) | Sm-D1,Sm-D autoantigen,snRNP core protein D1 |
| 20 | SA, T, Y (52, 22, 42) | Small nuclear ribonucleoprotein Sm D2 | polymer | 118 | 13551.9 | 3 | UniProt (P62316) Pfam (PF01423) | Homo sapiens (human) | Sm-D2,snRNP core protein D2 |
| 21 | AA, TA, U (5f, 2f, 4f) | Small nuclear ribonucleoprotein F | polymer | 86 | 9734.2 | 3 | UniProt (P62306) Pfam (PF01423) | Homo sapiens (human) | snRNP-F,Sm protein F,SmF |
| 22 | EA, RA, V (5e, 2e, 4e) | Small nuclear ribonucleoprotein E | polymer | 92 | 10817.6 | 3 | UniProt (P62304) Pfam (PF01423) | Homo sapiens (human) | snRNP-E,Sm protein E,SmE |
| 23 | DA, W, WA (5g, 2g, 4g) | Small nuclear ribonucleoprotein G | polymer | 76 | 8508.1 | 3 | UniProt (P62308) Pfam (PF01423) | Homo sapiens (human) | snRNP-G,Sm protein G,SmG |
| 24 | CA, UA, X (53, 23, 43) | Small nuclear ribonucleoprotein Sm D3 | polymer | 126 | 13940.3 | 3 | UniProt (P62318) Pfam (PF01423) | Homo sapiens (human) | Sm-D3,snRNP core protein D3 |
| 25 | Z (2B) | U2 small nuclear ribonucleoprotein B'' | polymer | 225 | 25524.4 | 1 | UniProt (P08579) Pfam (PF00076) | Homo sapiens (human) | U2 snRNP B'' |
| 26 | GA (2A) | U2 small nuclear ribonucleoprotein A' | polymer | 255 | 28456.6 | 1 | UniProt (P09661) Pfam (PF14580) | Homo sapiens (human) | U2 snRNP A' |
| 27 | HA (7) | 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 |
| 28 | IA (E) | U5 small nuclear ribonucleoprotein 40 kDa protein | polymer | 357 | 39359.5 | 1 | UniProt (Q96DI7) Pfam (PF00400) | Homo sapiens (human) | U5-40K,38 kDa-splicing factor,Prp8-binding protein,hPRP8BP,U5 snRNP-specific 40 kDa protein,WD repeat-containing protein 57 |
| 29 | JA (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) | Homo sapiens (human) | Activating signal cointegrator 1 complex subunit 3-like 1,BRR2 homolog,U5 snRNP-specific 200 kDa protein,U5-200KD |
| 30 | KA, LA (x, y) | Protein Red | polymer | 557 | 65731.5 | 2 | UniProt (Q13123) Pfam (PF07808) Pfam (PF07807) | Homo sapiens (human) | |
| 31 | MA, NA (v, w) | WD40 repeat-containing protein SMU1 | polymer | 513 | 57616.7 | 2 | UniProt (Q2TAY7) Pfam (PF17814) Pfam (PF00400) | Homo sapiens (human) | Smu-1 suppressor of mec-8 and unc-52 protein homolog |
| 32 | OA (z) | Serine/arginine-rich splicing factor 1 | polymer | 248 | 27798.8 | 1 | UniProt (Q07955) Pfam (PF00076) | Homo sapiens (human) | Alternative-splicing factor 1,ASF-1,Splicing factor,arginine/serine-rich 1,pre-mRNA-splicing factor SF2,P33 subunit |
| 33 | PA (W) | Peptidyl-prolyl cis-trans isomerase H | polymer | 177 | 19230.1 | 1 | UniProt (O43447) Pfam (PF00160) | Homo sapiens (human) | PPIase H,Rotamase H,Small nuclear ribonucleoprotein particle-specific cyclophilin H,CypH,U-snRNP-associated cyclophilin SnuCyp-20,USA-CYP |
| 34 | XA (5) | U5 snRNA | polymer | 117 | 37254.9 | 1 | GenBank (20330981) | Homo sapiens (human) | |
| 35 | YA (Q) | Protein BUD31 homolog | polymer | 144 | 17032.8 | 1 | UniProt (P41223) Pfam (PF01125) | Homo sapiens (human) | Protein EDG-2,Protein G10 homolog |
| 36 | ZA (D) | Thioredoxin-like protein 4A | polymer | 142 | 16807.3 | 1 | UniProt (P83876) Pfam (PF02966) | Homo sapiens (human) | DIM1 protein homolog,Spliceosomal U5 snRNP-specific 15 kDa protein,Thioredoxin-like U5 snRNP protein U5-15kD |
| 37 | AB (X) | WW domain-binding protein 4 | polymer | 376 | 42575.8 | 1 | UniProt (O75554) Pfam (PF06220) Pfam (PF00397) | Homo sapiens (human) | WBP-4,Formin-binding protein 21,WW domain-containing-binding protein 4 |
| 38 | BB (K) | Microfibrillar-associated protein 1 | polymer | 439 | 52050.5 | 1 | UniProt (P55081) Pfam (PF06991) | Homo sapiens (human) | Spliceosome B complex protein MFAP1 |
| 39 | CB (Z) | MINX pre-mRNA | polymer | 347 | 111300.5 | 1 | Homo sapiens | ||
| 40 | DB (L) | U4/U6 small nuclear ribonucleoprotein Prp31 | polymer | 499 | 55529.0 | 1 | UniProt (Q8WWY3) Pfam (PF01798) Pfam (PF09785) | Homo sapiens (human) | Pre-mRNA-processing factor 31,Serologically defined breast cancer antigen NY-BR-99,U4/U6 snRNP 61 kDa protein,Protein 61K,hPrp31 |
| 41 | EB (F) | U4/U6 small nuclear ribonucleoprotein Prp4 | polymer | 522 | 58536.1 | 1 | UniProt (O43172) Pfam (PF08799) Pfam (PF00400) | Homo sapiens (human) | PRP4 homolog,hPrp4,U4/U6 snRNP 60 kDa protein,WD splicing factor Prp4 |
| 42 | FB (N) | Pre-mRNA-processing factor 6 | polymer | 941 | 107092.2 | 1 | UniProt (O94906) Pfam (PF06424) Pfam (PF14559) Pfam (PF13432) | Homo sapiens (human) | Androgen receptor N-terminal domain-transactivating protein 1,ANT-1,PRP6 homolog,U5 snRNP-associated 102 kDa protein,U5-102 kDa protein |
| 43 | GB (A) | Pre-mRNA-processing-splicing factor 8 | polymer | 2335 | 273974.3 | 1 | UniProt (Q6P2Q9) Pfam (PF08082) Pfam (PF08083) Pfam (PF10598) Pfam (PF10597) Pfam (PF10596) Pfam (PF12134) Pfam (PF01398) Pfam (PF08084) | Homo sapiens (human) | 220 kDa U5 snRNP-specific protein,PRP8 homolog,Splicing factor Prp8,p220 |
| 44 | HB (I) | Pre-mRNA-splicing factor 38A | polymer | 312 | 37563.9 | 1 | UniProt (Q8NAV1) Pfam (PF03371) Pfam (PF12871) | Homo sapiens (human) | |
| 45 | IB (S) | U4/U6.U5 tri-snRNP-associated protein 1 | polymer | 800 | 90414.1 | 1 | UniProt (O43290) Pfam (PF19252) Pfam (PF03343) | Homo sapiens (human) | SNU66 homolog,hSnu66,Squamous cell carcinoma antigen recognized by T-cells 1,SART-1,hSART-1,U4/U6.U5 tri-snRNP-associated 110 kDa protein |
| 46 | JB (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) | Homo sapiens (human) | Elongation factor Tu GTP-binding domain-containing protein 2,SNU114 homolog,hSNU114,U5 snRNP-specific protein,116 kDa,U5-116 kDa |
| 47 | KB (M) | NHP2-like protein 1, N-terminally processed | polymer | 128 | 14191.5 | 1 | UniProt (P55769) Pfam (PF01248) | Homo sapiens (human) | |
| 48 | LB (T) | Transcription elongation regulator 1 | polymer | 1098 | 124083.0 | 1 | UniProt (O14776) Pfam (PF00397) Pfam (PF01846) | Homo sapiens (human) | TATA box-binding protein-associated factor 2S,Transcription factor CA150 |
| 49 | MB (4) | U4 snRNA | polymer | 144 | 46181.3 | 1 | GenBank (340142) | Homo sapiens (human) | |
| 50 | NB (6) | U6 snRNA | polymer | 106 | 34098.3 | 1 | GenBank (NR_004394.1) | Homo sapiens (human) | |
| 51 | OB (r) | Zinc finger matrin-type protein 2 | polymer | 199 | 23664.0 | 1 | UniProt (Q96NC0) Pfam (PF12171) | Homo sapiens (human) | |
| 52 | PB (J) | U4/U6 small nuclear ribonucleoprotein Prp3 | polymer | 683 | 77669.2 | 1 | UniProt (O43395) Pfam (PF01480) Pfam (PF08572) Pfam (PF06544) | Homo sapiens (human) | Pre-mRNA-splicing factor 3,hPrp3,U4/U6 snRNP 90 kDa protein |
| 53 | QB (s) | Ubiquitin-like protein 5 | polymer | 73 | 8560.9 | 1 | UniProt (Q9BZL1) Pfam (PF00240) | Homo sapiens (human) |
Sequence modifications
2: 1 - 188 (GenBank: 36516)
| PDB | External Database | Details |
|---|---|---|
| A 97 | G 355 | conflict |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 71 |
| Total formula weight | 3162167.7 | |
| All* | Total formula weight | 3162167.7 |
