Cryo-EM structure of a human post-catalytic spliceosome (P complex) at 3.0 angstrom
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 6icz
Q-score: 0.284
Zhang X, Zhan X, Yan C, Zhang W, Liu D, Lei J, Shi Y
Cell Res (2019) 29 pp. 274-285 [ DOI: doi:10.1038/s41422-019-0143-x Pubmed: 30728453 ]
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Protein casc3 (76 kDa, Protein from Homo sapiens)
- U2snrna (60 kDa, RNA from Homo sapiens)
- Pre-mrna-splicing factor syf2 (28 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Pre-mrna (87 kDa, RNA from Homo sapiens)
- U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
- Prkr-interacting protein 1 (21 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 17 (65 kDa, Protein from Homo sapiens)
- Crooked neck-like protein 1 (100 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor cwc22 homolog (105 kDa, Protein from Homo sapiens)
- Protein mago nashi homolog 2 (17 kDa, Protein from Homo sapiens)
- U6snrna (34 kDa, RNA from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Atp-dependent rna helicase dhx8 (139 kDa, Protein from Homo sapiens)
- U5snrna (37 kDa, RNA from Homo sapiens)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Homo sapiens)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Serine/arginine repetitive matrix protein 2 (300 kDa, Protein from Homo sapiens)
- Rna helicase aquarius (171 kDa, Protein from Homo sapiens)
- Rna-binding protein 8a (19 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Homo sapiens)
- Snw domain-containing protein 1 (61 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Eukaryotic initiation factor 4a-iii (46 kDa, Protein from Homo sapiens)
- Pleiotropic regulator 1 (57 kDa, Protein from Homo sapiens)
- Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 19 (55 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor slu7 (68 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor spf27 (26 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
- Human post_catalytic spliceosome (Complex from Homo sapiens)
- Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 6id0
Q-score: 0.314
Zhang X, Zhan X, Yan C, Zhang W, Liu D, Lei J, Shi Y
Cell Res (2019) 29 pp. 274-285 [ DOI: doi:10.1038/s41422-019-0143-x Pubmed: 30728453 ]
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor syf2 (28 kDa, Protein from Homo sapiens)
- U2snrna (60 kDa, RNA from Homo sapiens)
- Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Pre-mrna (87 kDa, RNA from Homo sapiens)
- Human intron lariat spliceosome (Complex from Homo sapiens)
- Pre-mrna-processing factor 17 (65 kDa, Protein from Homo sapiens)
- Crooked neck-like protein 1 (100 kDa, Protein from Homo sapiens)
- U6snrna (34 kDa, RNA from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- U5snrna (37 kDa, RNA from Homo sapiens)
- Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Rna helicase aquarius (171 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Homo sapiens)
- Snw domain-containing protein 1 (61 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Pleiotropic regulator 1 (57 kDa, Protein from Homo sapiens)
- Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
- Cwf19-like protein 2 (103 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 19 (55 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor spf27 (26 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Homo sapiens)
- Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)
Resolution: 2.86 Å
EM Method: Single-particle
Fitted PDBs: 6id1
Q-score: 0.291
Zhang X, Zhan X, Yan C, Zhang W, Liu D, Lei J, Shi Y
Cell Res (2019) 29 pp. 274-285 [ DOI: doi:10.1038/s41422-019-0143-x Pubmed: 30728453 ]
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor syf2 (28 kDa, Protein from Homo sapiens)
- U2snrna (60 kDa, RNA from Homo sapiens)
- Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Pre-mrna (87 kDa, RNA from Homo sapiens)
- Human intron lariat spliceosome (Complex from Homo sapiens)
- Pre-mrna-processing factor 17 (65 kDa, Protein from Homo sapiens)
- Crooked neck-like protein 1 (100 kDa, Protein from Homo sapiens)
- U6snrna (34 kDa, RNA from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- U5snrna (37 kDa, RNA from Homo sapiens)
- Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor atp-dependent rna helicase dhx15 (91 kDa, Protein from Homo sapiens)
- Rna helicase aquarius (171 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Homo sapiens)
- Snw domain-containing protein 1 (61 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Pleiotropic regulator 1 (57 kDa, Protein from Homo sapiens)
- Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
- Cwf19-like protein 2 (103 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 19 (55 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor spf27 (26 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated protein (23 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Homo sapiens)
- Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6j8g, 6j8h
Q-score: 0.495
Shen H, Liu D, Wu K, Lei J, Yan N
Science (2019) 363 pp. 1303-1308 [ Pubmed: 30765606 DOI: doi:10.1126/science.aaw2493 ]
- Complex of human voltage-gated sodium channel nav1.7 with auxiliary beta subunits, huwentoxin-iv and saxitoxin (Complex from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- [(3as,4r,10as)-2,6-diamino-10,10-dihydroxy-3a,4,9,10-tetrahydro-3h,8h-pyrrolo[1,2-c]purin-4-yl]methyl carbamate (299 Da, Ligand)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Sodium channel protein type 9 subunit alpha (231 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 6j8i, 6j8j
Q-score: 0.46
Shen H, Liu D, Wu K, Lei J, Yan N
Science (2019) 363 pp. 1303-1308 [ Pubmed: 30765606 DOI: doi:10.1126/science.aaw2493 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Complex of human voltage-gated sodium channel nav1.7 with auxiliary beta subunits, protx-ii and tetrodotoxin (Complex from Homo sapiens)
- Sodium channel subunit beta-2 (24 kDa, Protein from Homo sapiens)
- Sodium channel protein type 9 subunit alpha (231 kDa, Protein from Homo sapiens)
- Sodium channel subunit beta-1 (24 kDa, Protein from Homo sapiens)
- (1r,5r,6r,7r,9s,11s,12s,13s,14s)-3-amino-14-(hydroxymethyl)-8,10-dioxa-2,4-diazatetracyclo[7.3.1.1~7,11~.0~1,6~]tetradec-3-ene-5,9,12,13,14-pentol (non-preferred name) (319 Da, Ligand)