The cryo-EM structure of the human pre-A complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 7vpx
Q-score: 0.155
Zhang X, Zhan X, Bian T, Yang F, Li P, Lu Y, Xing Z, Fan R, Zhang QC, Shi Y
Nat Struct Mol Biol (2024) [ DOI: doi:10.1038/s41594-023-01188-0 Pubmed: 38196034 ]
- Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Spliceostatin a (form ii) (523 Da, Ligand)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
- U1 small nuclear ribonucleoprotein c (17 kDa, Protein from Homo sapiens)
- U2 snrna (60 kDa, RNA from Homo sapiens)
- Pre-mrna (83 kDa, RNA from unidentified adenovirus)
- Human pre-a (Complex from Homo sapiens)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Probable atp-dependent rna helicase ddx46 (117 kDa, Protein from Homo sapiens)
- Splicing factor 1 (68 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Dnaj homolog subfamily c member 8 (29 kDa, Protein from Homo sapiens)
- Pre-mrna, 5ss (Complex)
- Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
- U1 small nuclear ribonucleoprotein a (31 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)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- 5ss (3 kDa, RNA from unidentified adenovirus)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- U1 small nuclear ribonucleoprotein 70 kda (51 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Human pre-a complex (Complex from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
- U1 snrna (52 kDa, RNA from Homo sapiens)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
The cryo-EM structure of human pre-17S U2 snRNP
Resolution: 2.7 Å
EM Method: Single-particle
Fitted PDBs: 8hk1
Q-score: 0.317
Yang F, Bian T, Zhan X, Chen Z, Xing Z, Larsen NA, Zhang X, Shi Y
Nat Commun (2023) 14 pp. 897-897 [ DOI: doi:10.1038/s41467-023-36489-x Pubmed: 36797247 ]
- Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- Hiv tat-specific factor 1 (85 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
- U2 snrna (60 kDa, RNA from Homo sapiens)
- Atp-dependent rna helicase ddx42 (103 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 5 (10 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)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- The human pre-17s u2 snrnp (Complex from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
- [(2~{s},3~{s},4~{e},6~{s},7~{r},10~{r})-3,7-dimethyl-2-[(2~{e},4~{e},6~{r})-6-methyl-6-oxidanyl-7-[(2~{r},3~{r})-3-[(2~{r},3~{s})-3-oxidanylpentan-2-yl]oxiran-2-yl]hepta-2,4-dien-2-yl]-7,10-bis(oxidanyl)-12-oxidanylidene-1-oxacyclododec-4-en-6-yl] 4-cycloheptylpiperazine-1-carboxylate (718 Da, Ligand)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
Structure of human B-cell antigen receptor of the IgM isotype
Resolution: 3.3 Å
EM Method: Single-particle
Fitted PDBs: 7xq8
Q-score: 0.313
Su Q, Chen M, Shi Y, Zhang X, Huang G, Huang B, Liu D, Liu Z, Shi Y
Science (2022) 377 pp. 875-880 [ DOI: doi:10.1126/science.abo3923 Pubmed: 35981043 ]
- B-cell antigen receptor complex-associated protein alpha chain (28 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Structure of human b-cell antigen receptor of the igm isotype (Complex from Homo sapiens)
- Light chain of fab fragments of the vrc01 antibody,immunoglobulin kappa constant (27 kDa, Protein from Homo sapiens)
- Chimera of heavy chain of vrc01 antibody fab and isoform 2 of immunoglobulin heavy constant mu (67 kDa, Protein from Homo sapiens)
- Light chain (Complex from Homo sapiens)
- Heavy chain (Complex from Homo sapiens)
- B-cell antigen receptor complex-associated protein beta chain (29 kDa, Protein from Homo sapiens)
- Human b-cell antigen receptor (Complex)
The cryo-EM map of the human 17S U2 snRNP core region
Resolution: 2.5 Å
EM Method: Single-particle
Fitted PDBs: 7evo
Q-score: 0.367
Zhang X, Zhan X, Bian T, Yang F, Li P, Lu Y, Xing Z, Fan R, Zhang QC, Shi Y
Nat Struct Mol Biol (2024) [ DOI: doi:10.1038/s41594-023-01188-0 Pubmed: 38196034 ]
- Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- Hiv tat-specific factor 1 (85 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
- U2 snrna (60 kDa, RNA from Homo sapiens)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 5 (10 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)
- The human u2 snrnp (Complex from Homo sapiens)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Rna helicase (119 kDa, Protein from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
- [(2~{s},3~{s},4~{e},6~{s},7~{r},10~{r})-3,7-dimethyl-2-[(2~{e},4~{e},6~{r})-6-methyl-6-oxidanyl-7-[(2~{r},3~{r})-3-[(2~{r},3~{s})-3-oxidanylpentan-2-yl]oxiran-2-yl]hepta-2,4-dien-2-yl]-7,10-bis(oxidanyl)-12-oxidanylidene-1-oxacyclododec-4-en-6-yl] 4-cycloheptylpiperazine-1-carboxylate (718 Da, Ligand)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (24 kDa, Protein from Homo sapiens)
The Cryo-EM Structure of the Precusor of Human Pre-catalytic Spliceosome (pre-B complex)
Resolution: 5.7 Å
EM Method: Single-particle
Fitted PDBs: 6ah0
Q-score: 0.12
Zhan X, Yan C, Zhang X, Lei J, Shi Y
Cell Res (2018) 28 pp. 1129-1140 [ DOI: doi:10.1038/s41422-018-0094-7 Pubmed: 30315277 ]
- Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- U2snrna (60 kDa, RNA from Homo sapiens)
- Pre-mrna (87 kDa, RNA from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
- U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
- U4snrna (46 kDa, RNA from Homo sapiens)
- U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
- U6snrna (34 kDa, RNA from Homo sapiens)
- Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp3 (77 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Homo sapiens)
- U5snrna (37 kDa, RNA 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)
- Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
- Spliceosome (Complex from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
- Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
- U4/u6.u5 tri-snrnp-associated protein 2 (65 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
- Nhp2-like protein 1 (14 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)
- Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
The Cryo-EM Structure of Human Pre-catalytic Spliceosome (B complex) at 3.8 angstrom resolution
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 6ahd
Q-score: 0.189
Zhan X, Yan C, Zhang X, Lei J, Shi Y
Cell Res (2018) 28 pp. 1129-1140 [ DOI: doi:10.1038/s41422-018-0094-7 Pubmed: 30315277 ]
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase h (19 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- U2snrna (60 kDa, RNA from Homo sapiens)
- Pre-mrna (87 kDa, RNA from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor 38a (37 kDa, Protein from Homo sapiens)
- Ww domain-binding protein 4 (42 kDa, Protein from Homo sapiens)
- Smb (23 kDa, Protein from Homo sapiens)
- Sf3b145, splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- Brr2, u5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
- U4snrna (46 kDa, RNA from Homo sapiens)
- U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
- U6snrna (34 kDa, RNA from Homo sapiens)
- Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- U4/u6 small nuclear ribonucleoprotein prp3 (77 kDa, Protein from Homo sapiens)
- Smf (10 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Zinc finger matrin-type protein 2 (23 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Homo sapiens)
- U5snrna (37 kDa, RNA 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)
- Sf3b49, splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
- Human pre-catalytic spliceosome (b complex) (Complex from Homo sapiens)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
- Microfibrillar-associated protein 1 (52 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
- Sf3b5, splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
- Sf3b14a, splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
- Ubiquitin-like protein 5 (8 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- Sme (9 kDa, Protein from Homo sapiens)
- Wd40 repeat-containing protein smu1 (57 kDa, Protein from Homo sapiens)
- Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
- U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)