Resolution: 2.49 Å
EM Method: Single-particle
Fitted PDBs: 8pk8
Q-score: 0.661
Schulz V, Steinhilper R, Oltmanns J, Freibert SA, Krapoth N, Linne U, Welsch S, Hoock MH, Schunemann V, Murphy BJ, Lill R
Nat Commun (2024) 15 pp. 3269-3269 [ Pubmed: 38627381 DOI: doi:10.1038/s41467-024-47310-8 ]
- Cysteine desulfurase (44 kDa, Protein from Homo sapiens)
- Pyridoxal-5'-phosphate (247 Da, Ligand)
- Iron-sulfur cluster assembly enzyme iscu (15 kDa, Protein from Homo sapiens)
- Fe (ii) ion (55 Da, Ligand)
- Iron-bound human nfs1-isd11-acp1-iscu2-fxn (fe-niaux) complex during persulfide transfer (Complex from Homo sapiens)
- Frataxin mature form (14 kDa, Protein from Homo sapiens)
- Water (18 Da, Ligand)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Lyr motif-containing protein 4 (13 kDa, Protein from Homo sapiens)
- Acyl carrier protein (8 kDa, Protein from Escherichia coli BL21(DE3))
Resolution: 2.58 Å
EM Method: Single-particle
Fitted PDBs: 8pk9
Q-score: 0.661
Schulz V, Steinhilper R, Oltmanns J, Freibert SA, Krapoth N, Linne U, Welsch S, Hoock MH, Schunemann V, Murphy BJ, Lill R
Nat Commun (2024) 15 pp. 3269-3269 [ DOI: doi:10.1038/s41467-024-47310-8 Pubmed: 38627381 ]
- Pyridoxal-5'-phosphate (247 Da, Ligand)
- Iron-sulfur cluster assembly enzyme iscu (15 kDa, Protein from Homo sapiens)
- Fe (ii) ion (55 Da, Ligand)
- Frataxin mature form (14 kDa, Protein from Homo sapiens)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Water (18 Da, Ligand)
- Lyr motif-containing protein 4 (13 kDa, Protein from Homo sapiens)
- Cysteine desulfurase (44 kDa, Protein from Homo sapiens)
- Iron-bound human nfs1-isd11-acp1-iscu2-fxn (fe-niaux) complex during persulfide transfer (Complex from Homo sapiens)
- Acyl carrier protein (8 kDa, Protein from Escherichia coli BL21(DE3))
Resolution: 2.75 Å
EM Method: Single-particle
Fitted PDBs: 8pka
Q-score: 0.624
Schulz V, Steinhilper R, Oltmanns J, Freibert SA, Krapoth N, Linne U, Welsch S, Hoock MH, Schunemann V, Murphy BJ, Lill R
Nat Commun (2024) 15 pp. 3269-3269 [ DOI: doi:10.1038/s41467-024-47310-8 Pubmed: 38627381 ]
- Iron-bound human nfs1-isd11-acp1-iscu2-fxn (fe-niaux) complex during persulfide transfer (Complex)
- Cysteine desulfurase (44 kDa, Protein from Homo sapiens)
- Pyridoxal-5'-phosphate (247 Da, Ligand)
- Fe (ii) ion (55 Da, Ligand)
- Water (18 Da, Ligand)
- S-[2-({n-[(2r)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-beta-alanyl}amino)ethyl] dodecanethioate (540 Da, Ligand)
- Iron-sulfur cluster assembly enzyme iscu (15 kDa, Protein from Homo sapiens)
- Cysteine desulfurase, lyr motif-containing protein 4 and iron-sulfur cluster assembly enzyme iscu (Complex from Homo sapiens)
- Lyr motif-containing protein 4 (13 kDa, Protein from Homo sapiens)
- Acyl carrier protein (Complex from Escherichia coli BL21(DE3))
- Acyl carrier protein (8 kDa, Protein from Escherichia coli BL21(DE3))
Cryo-EM structure of human Elp123 in complex with 5'-deoxyadenosine and methionine
Resolution: 3.58 Å
EM Method: Single-particle
Fitted PDBs: 8pty
Q-score: 0.487
Abbassi NE, Jaciuk M, Scherf D, Bohnert P, Rau A, Hammermeister A, Rawski M, Indyka P, Wazny G, Chramiec-Glabik A, Dobosz D, Skupien-Rabian B, Jankowska U, Rappsilber J, Schaffrath R, Lin TY, Glatt S
Nat Commun (2024) 15 pp. 4094-4094 [ DOI: doi:10.1038/s41467-024-48251-y Pubmed: 38750017 ]
- Iron/sulfur cluster (351 Da, Ligand)
- Human elp123 in complex with 5'-deoxyadenosine and methionine (610 kDa, Complex from Homo sapiens)
- Elongator complex protein 3 (65 kDa, Protein from Homo sapiens)
- Elongator complex protein 1 (150 kDa, Protein from Homo sapiens)
- Elongator complex protein 2 (92 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- 5'-deoxyadenosine (251 Da, Ligand)
Resolution: 4.25 Å
EM Method: Single-particle
Fitted PDBs: 8pu0
Q-score: 0.277
Abbassi NE, Jaciuk M, Scherf D, Bohnert P, Rau A, Hammermeister A, Rawski M, Indyka P, Wazny G, Chramiec-Glabik A, Dobosz D, Skupien-Rabian B, Jankowska U, Rappsilber J, Schaffrath R, Lin TY, Glatt S
Nat Commun (2024) 15 pp. 4094-4094 [ DOI: doi:10.1038/s41467-024-48251-y Pubmed: 38750017 ]
- 5'-deoxyadenosine (251 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Human elp123 in complex with glutamine trna, desulpho-coa, 5'-deoxyadenosine and methionine (635 kDa, Complex from Homo sapiens)
- Desulfo-coenzyme a (735 Da, Ligand)
- Elongator complex protein 3 (65 kDa, Protein from Homo sapiens)
- Elongator complex protein 1 (150 kDa, Protein from Homo sapiens)
- Elongator complex protein 2 (92 kDa, Protein from Homo sapiens)
- Methionine (149 Da, Ligand)
- Trna gln (24 kDa, RNA from Homo sapiens)
Mitochondrial complex I from Mus musculus in the active state bound with piericidin A
Resolution: 2.84 Å
EM Method: Single-particle
Fitted PDBs: 8olt
Q-score: 0.628
Grba DN, Chung I, Bridges HR, Agip AA, Hirst J
Sci Adv (2023) 9 pp. eadi1359-eadi1359 [ DOI: doi:10.1126/sciadv.adi1359 Pubmed: 37531432 ]
- Nadh dehydrogenase [ubiquinone] 1 subunit c2 (14 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 (22 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial (17 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 (15 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7, methylglyoxal bis-(guanylhydrazone), nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 (16 kDa, Protein from Mus musculus)
- Acyl carrier protein, mitochondrial (17 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial (42 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 (20 kDa, Protein from house mouse)
- Cardiolipin (1 kDa, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (13 kDa, Protein from house mouse)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (50 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 (9 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial (21 kDa, Protein from house mouse)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (8 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6 (15 kDa, Protein from house mouse)
- Nadh-ubiquinone oxidoreductase chain 6 (18 kDa, Protein from house mouse)
- Nadh-ubiquinone oxidoreductase 75 kda subunit, mitochondrial (79 kDa, Protein from house mouse)
- Sodium ion (22 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 4 (51 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 (13 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (15 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (6 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 (21 kDa, Protein from house mouse)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from house mouse)
- Nadh-ubiquinone oxidoreductase chain 1 (36 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 5 (12 kDa, Protein from house mouse)
- Zinc ion (65 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial (30 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (24 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial (52 kDa, Protein from house mouse)
- Nadh-ubiquinone oxidoreductase chain 3 (13 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 (11 kDa, Protein from house mouse)
- ~{s}-[2-[3-[[(2~{r})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{s})-3-oxidanyltetradecanethioate (584 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial (24 kDa, Protein from house mouse)
- Water (18 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (19 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7 (12 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (27 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (21 kDa, Protein from house mouse)
- Magnesium ion (24 Da, Ligand)
- Mitochondrial respiratory complex i (1 MDa, Complex from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (10 kDa, Protein from house mouse)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 subunit c1, mitochondrial (8 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial (11 kDa, Protein from house mouse)
- Piericidin a (415 Da, Ligand)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 (15 kDa, Protein from house mouse)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 4l (10 kDa, Protein from house mouse)
- Flavin mononucleotide (456 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 2 (38 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 (16 kDa, Protein from house mouse)
- Nadh dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial (11 kDa, Protein from house mouse)
- Myristic acid (228 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (17 kDa, Protein from house mouse)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (40 kDa, Protein from house mouse)
Mitochondrial complex I from Mus musculus in the active state
Resolution: 2.39 Å
EM Method: Single-particle
Fitted PDBs: 8om1
Q-score: 0.696
Grba DN, Chung I, Bridges HR, Agip AA, Hirst J
Sci Adv (2023) 9 pp. eadi1359-eadi1359 [ DOI: doi:10.1126/sciadv.adi1359 Pubmed: 37531432 ]
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 5, mitochondrial (21 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 4 (15 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 7 (16 kDa, Protein from Mus musculus)
- Flavin mononucleotide (456 Da, Ligand)
- Cardiolipin (1 kDa, Ligand)
- Nadh-ubiquinone oxidoreductase chain 6 (18 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 11, mitochondrial (17 kDa, Protein from Mus musculus)
- Nadh-ubiquinone oxidoreductase chain 4 (51 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 3 (9 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 5 (12 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial (30 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial (42 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 6 (15 kDa, Protein from Mus musculus)
- ~{s}-[2-[3-[[(2~{r})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] (3~{s})-3-oxidanyltetradecanethioate (584 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 (16 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 8, mitochondrial (21 kDa, Protein from Mus musculus)
- Nadh-ubiquinone oxidoreductase chain 3 (13 kDa, Protein from Mus musculus)
- 1,2-diacyl-sn-glycero-3-phosphocholine (790 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 3 (11 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 7 (12 kDa, Protein from Mus musculus)
- Magnesium ion (24 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 4l (10 kDa, Protein from Mus musculus)
- Myristic acid (228 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 1 (8 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 10, mitochondrial (40 kDa, Protein from Mus musculus)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 1 (36 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 11 (14 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 8, mitochondrial (24 kDa, Protein from Mus musculus)
- Acyl carrier protein, mitochondrial (17 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 2, mitochondrial (11 kDa, Protein from Mus musculus)
- 1,2-distearoyl-sn-glycerophosphoethanolamine (748 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 9 (22 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 6 (15 kDa, Protein from Mus musculus)
- Sodium ion (22 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 5 (13 kDa, Protein from Mus musculus)
- Iron/sulfur cluster (351 Da, Ligand)
- Nadh-ubiquinone oxidoreductase chain 5 (68 kDa, Protein from Mus musculus)
- Nadh-ubiquinone oxidoreductase 75 kda subunit, mitochondrial (79 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 subunit c1, mitochondrial (8 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] flavoprotein 3, mitochondrial (11 kDa, Protein from Mus musculus)
- Mitochondrial respiratory complex i (1 MDa, Complex from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 12 (17 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 10 (21 kDa, Protein from Mus musculus)
- Nadh-ubiquinone oxidoreductase chain 2 (38 kDa, Protein from Mus musculus)
- Zinc ion (65 Da, Ligand)
- 2'-deoxyguanosine-5'-triphosphate (507 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 7, mitochondrial (24 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 (10 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 4, mitochondrial (19 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 8 (20 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 subunit c2 (14 kDa, Protein from Mus musculus)
- Nadph dihydro-nicotinamide-adenine-dinucleotide phosphate (745 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial (50 kDa, Protein from Mus musculus)
- Water (18 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] flavoprotein 2, mitochondrial (27 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 6, mitochondrial (13 kDa, Protein from Mus musculus)
- Nadh dehydrogenase [ubiquinone] 1 beta subcomplex subunit 1 (6 kDa, Protein from Mus musculus)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Nadh dehydrogenase [ubiquinone] iron-sulfur protein 2, mitochondrial (52 kDa, Protein from Mus musculus)
RNA polymerase II pre-initiation complex with the distal +1 nucleosome (PIC-Nuc18W)
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8bvw
Q-score: 0.234
Abril-Garrido J, Dienemann C, Grabbe F, Velychko T, Lidschreiber M, Wang H, Cramer P
Mol Cell (2023) 83 pp. 1798- [ DOI: doi:10.1016/j.molcel.2023.04.011 Pubmed: 37148879 ]
- General transcription factor iih (490 kDa, Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from pig)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from pig)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from pig)
- Mammalian rna polymerase ii (516 kDa, Complex from Sus scrofa)
- Rna polymerase ii subunit k (7 kDa, Protein from pig)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit d (16 kDa, Protein from pig)
- General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Unassigned peptide, likely tfiie-beta (1 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from pig)
- General transcription factor iif (Complex from Homo sapiens)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- Tata-box binding protein (Complex from Homo sapiens)
- Unassigned peptide, likely xpb (698 Da, Protein from Homo sapiens)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from pig)
- Zinc ion (65 Da, Ligand)
- Dna-directed rna polymerase subunit (217 kDa, Protein from pig)
- Non-template dna (67 kDa, DNA from unidentified adenovirus)
- Rna polymerase ii pre-initiation complex with the distal +1 nucleosome (1 MDa, Complex)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from pig)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- General transcription and dna repair factor iih helicase subunit xpb (88 kDa, Protein from Homo sapiens)
- Nucleosome (protein) (Complex from Xenopus laevis)
- General transcription factor iie (Complex from Homo sapiens)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Magnesium ion (24 Da, Ligand)
- Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Cyclin-h (37 kDa, Protein from Homo sapiens)
- Nucleosome (dna) (Complex from unidentified adenovirus)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from pig)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from pig)
- General transcription factor iib (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from pig)
- Template dna (67 kDa, DNA from unidentified adenovirus)
- General transcription factor iia (Complex from Homo sapiens)
- General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
RNA polymerase II pre-initiation complex with the proximal +1 nucleosome (PIC-Nuc10W)
Resolution: 4.1 Å
EM Method: Single-particle
Fitted PDBs: 8byq
Q-score: 0.187
Abril-Garrido J, Dienemann C, Grabbe F, Velychko T, Lidschreiber M, Wang H, Cramer P
Mol Cell (2023) 83 pp. 1798- [ DOI: doi:10.1016/j.molcel.2023.04.011 Pubmed: 37148879 ]
- Dna-directed rna polymerase ii subunit rpb9 (14 kDa, Protein from pig)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc5 (7 kDa, Protein from pig)
- Histone h3.2 (15 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase subunit beta (134 kDa, Protein from pig)
- General transcription factor iih (Complex from Homo sapiens)
- Rna polymerase ii subunit k (7 kDa, Protein from pig)
- Cdk-activating kinase assembly factor mat1 (35 kDa, Protein from Homo sapiens)
- Rna polymerase ii subunit d (16 kDa, Protein from pig)
- General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- Tata-box-binding protein (37 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 1 (58 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb3 (31 kDa, Protein from pig)
- General transcription factor iif (Complex from Homo sapiens)
- Transcription initiation factor iib (34 kDa, Protein from Homo sapiens)
- Tata-box binding protein (Complex from Homo sapiens)
- Histone h2a type 1 (14 kDa, Protein from Xenopus laevis)
- General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerases i, ii, and iii subunit rpabc3 (17 kDa, Protein from pig)
- Zinc ion (65 Da, Ligand)
- General transcription factor iie subunit 1 (22 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase subunit (217 kDa, Protein from pig)
- Histone h4 (11 kDa, Protein from Xenopus laevis)
- Dna-directed rna polymerase ii subunit rpb11-a (13 kDa, Protein from pig)
- Mammalian rna polymerase ii (Complex from Sus scrofa)
- Transcription initiation factor iia subunit 1 (41 kDa, Protein from Homo sapiens)
- Nucleosome (protein) (Complex from Xenopus laevis)
- General transcription factor iie (Complex from Homo sapiens)
- Cyclin-dependent kinase 7 (39 kDa, Protein from Homo sapiens)
- Non-template dna (64 kDa, DNA from unidentified adenovirus)
- Histone h2b 1.1 (13 kDa, Protein from Xenopus laevis)
- Template dna (64 kDa, DNA from unidentified adenovirus)
- Magnesium ion (24 Da, Ligand)
- Transcription initiation factor iie subunit beta (33 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Homo sapiens)
- General transcription factor iif subunit 2 (28 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Rna polymerase ii pre-initiation complex with the proximal +1 nucleosome (1 MDa, Complex)
- General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
- Cyclin-h (37 kDa, Protein from Homo sapiens)
- Nucleosome (dna) (Complex from unidentified adenovirus)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit e (24 kDa, Protein from pig)
- Transcription initiation factor iia subunit 2 (12 kDa, Protein from Homo sapiens)
- Dna-directed rna polymerase ii subunit rpb7 (19 kDa, Protein from pig)
- General transcription factor iib (Complex from Homo sapiens)
- Dna-directed rna polymerase ii subunit f (14 kDa, Protein from pig)
- General transcription factor iia (Complex from Homo sapiens)
- General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
Initial DNA-lesion (Cy5) binding by XPC and TFIIH
Resolution: 4.0 Å
EM Method: Single-particle
Fitted PDBs: 8ebs
Q-score: 0.274
Kim J, Li CL, Chen X, Cui Y, Golebiowski FM, Wang H, Hanaoka F, Sugasawa K, Yang W
Nature (2023) 617 pp. 170-175 [ Pubmed: 37076618 DOI: doi:10.1038/s41586-023-05959-z ]
- General transcription factor iih subunit 4, p52 (52 kDa, Protein from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Xeroderma pigmentosum, complementation group c, isoform cra_a (107 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- General transcription factor iih subunit 2 (46 kDa, Protein from Homo sapiens)
- General transcription and dna repair factor iih helicase subunit xpd (88 kDa, Protein from Homo sapiens)
- Bulky dna lesion recognition complex (580 kDa, Complex from Homo sapiens)
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpb subunit (89 kDa, Protein from Homo sapiens)
- Uv excision repair protein rad23 homolog b (44 kDa, Protein from Homo sapiens)
- Dna (cy5) (16 kDa, DNA from synthetic construct)
- Dna (16 kDa, DNA from synthetic construct)
- Centrin-2 (19 kDa, Protein from Homo sapiens)
- Calcium ion (40 Da, Ligand)
- General transcription factor iih subunit 1 (62 kDa, Protein from Homo sapiens)