Resolution: 2.89 Å
EM Method: Single-particle
Fitted PDBs: 8rhp
Q-score: 0.522
Franke P, Freiberger S, Zhang L, Einsle O
Nature (2025) 637 pp. 998-1004 [ DOI: doi:10.1038/s41586-024-08355-3 Pubmed: 39779845 ]
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- Supercomplex of nifdk-nifh-fesii (611 kDa, Complex from Azotobacter vinelandii)
- Calcium ion (40 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii)
- Protein fesii (13 kDa, Protein from Azotobacter vinelandii)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Nitrogenase iron protein 1 (31 kDa, Protein from Azotobacter vinelandii)
Resolution: 3.41 Å
EM Method: Single-particle
Fitted PDBs: 8rb8
Q-score: 0.455
Nat Chem Biol (2024) 20 pp. 1078-1085 [ Pubmed: 38890433 DOI: doi:10.1038/s41589-024-01641-1 ]
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (25 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Riboflavin (376 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Flavin mononucleotide (456 Da, Ligand from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Protein rnfh (9 kDa, Protein from Azotobacter vinelandii DJ)
- Heptameric complex nadh:ferredoxin oxidoreductase rnf1 (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
Cryo-EM structure of the NADH:ferredoxin oxidoreductase RNF from Azotobacter vinelandii, NADH added
Resolution: 3.19 Å
EM Method: Single-particle
Fitted PDBs: 8rb9
Q-score: 0.491
Nat Chem Biol (2024) 20 pp. 1078-1085 [ Pubmed: 38890433 DOI: doi:10.1038/s41589-024-01641-1 ]
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Riboflavin (376 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (24 kDa, Protein from Azotobacter vinelandii DJ)
- Flavin mononucleotide (456 Da, Ligand from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Protein rnfh (9 kDa, Protein from Azotobacter vinelandii DJ)
- Heptameric complex nadh:ferredoxin oxidoreductase rnf1 (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
Resolution: 3.24 Å
EM Method: Single-particle
Fitted PDBs: 8rbm
Q-score: 0.473
Nat Chem Biol (2024) 20 pp. 1078-1085 [ Pubmed: 38890433 DOI: doi:10.1038/s41589-024-01641-1 ]
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Riboflavin (376 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (24 kDa, Protein from Azotobacter vinelandii DJ)
- Flavin mononucleotide (456 Da, Ligand from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Heptameric complex nadh:ferredoxin oxidoreductase rnf1 (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
Resolution: 3.32 Å
EM Method: Single-particle
Fitted PDBs: 8rbq
Q-score: 0.444
Nat Chem Biol (2024) 20 pp. 1078-1085 [ Pubmed: 38890433 DOI: doi:10.1038/s41589-024-01641-1 ]
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Riboflavin (376 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Phosphatidylethanolamine (734 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (24 kDa, Protein from Azotobacter vinelandii DJ)
- Flavin mononucleotide (456 Da, Ligand from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Protein rnfh (9 kDa, Protein from Azotobacter vinelandii DJ)
- Heptameric complex nadh:ferredoxin oxidoreductase rnf1 (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
Ammonium Transporter Amt1 from Shewanella denitrificans
Resolution: 2.53 Å
EM Method: Single-particle
Fitted PDBs: 8qpf
Q-score: 0.552
Pfluger T, Gschell M, Zhang L, Shnitsar V, Zabadne AJ, Zierep P, Gunther S, Einsle O, Andrade SLA
Sci Adv (2024) 10 pp. eadm9441-eadm9441 [ DOI: doi:10.1126/sciadv.adm9441 Pubmed: 38838143 ]
- Ammonium transporter (73 kDa, Protein from Shewanella denitrificans)
- Water (18 Da, Ligand)
- Homotrimer amt1 (Complex from Shewanella denitrificans)
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 8ahx
Q-score: 0.513
Nat Chem Biol (2024) [ Pubmed: 38890433 DOI: doi:10.1038/s41589-024-01641-1 ]
- Ion-translocating oxidoreductase complex subunit e (25 kDa, Protein from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit g (25 kDa, Protein from Azotobacter vinelandii DJ)
- Flavin mononucleotide (456 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit a (19 kDa, Protein from Azotobacter vinelandii DJ)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Heptameric complex of nadh:ferredoxin oxidoreductase rnf (188 kDa, Complex from Azotobacter vinelandii DJ)
- Ion-translocating oxidoreductase complex subunit b (17 kDa, Protein from Azotobacter vinelandii DJ)
- Riboflavin (376 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit d (39 kDa, Protein from Azotobacter vinelandii DJ)
- Iron/sulfur cluster (351 Da, Ligand)
- Protein rnfh (9 kDa, Protein from Azotobacter vinelandii DJ)
- Dodecyl-beta-d-maltoside (510 Da, Ligand)
- Ion-translocating oxidoreductase complex subunit c (52 kDa, Protein from Azotobacter vinelandii DJ)
Cytochrome c maturation complex CcmABCD
Resolution: 3.47 Å
EM Method: Single-particle
Fitted PDBs: 8ce1
Q-score: 0.466
Ilcu L, Denkhaus L, Brausemann A, Zhang L, Einsle O
Nat Commun (2023) 14 pp. 5190-5190 [ Pubmed: 37626034 DOI: doi:10.1038/s41467-023-40881-y ]
- Cytochrome c biogenesis atp-binding export protein ccma (24 kDa, Protein from Escherichia coli)
- Heterooctameric complex of cytochrome c maturation sysmtem i, ccm(abcd)2 (Complex from Escherichia coli)
- Heme exporter protein c (27 kDa, Protein from Escherichia coli K-12)
- Heme exporter protein d (7 kDa, Protein from Escherichia coli K-12)
- Heme exporter protein b (23 kDa, Protein from Escherichia coli)
Cytochrome c maturation complex CcmABCD, E154Q, ATP-bound
Resolution: 3.62 Å
EM Method: Single-particle
Fitted PDBs: 8ce5
Q-score: 0.425
Ilcu L, Denkhaus L, Brausemann A, Zhang L, Einsle O
Nat Commun (2023) 14 pp. 5190-5190 [ Pubmed: 37626034 DOI: doi:10.1038/s41467-023-40881-y ]
- Heme exporter protein c (27 kDa, Protein from Escherichia coli K-12)
- Heme exporter protein b (23 kDa, Protein from Escherichia coli K-12)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Complex of cytochrome c maturation sysmtem i, ccm(ab)2cd (Complex from Escherichia coli)
- Heme exporter protein d (7 kDa, Protein from Escherichia coli K-12)
- Cytochrome c biogenesis atp-binding export protein ccma (24 kDa, Protein from Escherichia coli K-12)
Cytochrome c maturation complex CcmABCDE
Resolution: 3.81 Å
EM Method: Single-particle
Fitted PDBs: 8ce8
Q-score: 0.378
Ilcu L, Denkhaus L, Brausemann A, Zhang L, Einsle O
Nat Commun (2023) 14 pp. 5190-5190 [ Pubmed: 37626034 DOI: doi:10.1038/s41467-023-40881-y ]
- Cytochrome c-type biogenesis protein ccme (17 kDa, Protein from Escherichia coli K-12)
- Cytochrome c biogenesis atp-binding export protein ccma (24 kDa, Protein from Escherichia coli K-12)
- Heme exporter protein c (27 kDa, Protein from Escherichia coli K-12)
- Heme exporter protein b (23 kDa, Protein from Escherichia coli K-12)
- Complex of cytochrome c maturation sysmtem i, ccm(abcd)2e (Complex from Escherichia coli)
- Heme exporter protein d (7 kDa, Protein from Escherichia coli K-12)