Azotobacter vinelandii 1:1:1 MoFeP:FeP:FeSII-Complex (C1 symmetry)
Resolution: 3.94 Å
EM Method: Single-particle
Fitted PDBs: 9cu0
Q-score: 0.372
Narehood SM, Cook BD, Srisantitham S, Eng VH, Shiau AA, McGuire KL, Britt RD, Herzik Jr MA, Tezcan FA
Nature (2025) 637 pp. 991-997 [ Pubmed: 39779844 DOI: doi:10.1038/s41586-024-08311-1 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Nitrogenase iron protein 1 (31 kDa, Protein from Azotobacter vinelandii)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Azotobacter vinelandii 1:1:1 mofep:fep:fesii-complex (c1 symmetry) (313 kDa, Complex from Azotobacter vinelandii)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Protein fesii (13 kDa, Protein from Azotobacter vinelandii)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii)
Azotobacter vinelandii filamentous 2:2:1 MoFeP:FeP:FeSII-Complex (termini; C1 symmetry)
Resolution: 2.83 Å
EM Method: Single-particle
Fitted PDBs: 9cu1
Q-score: 0.333
Narehood SM, Cook BD, Srisantitham S, Eng VH, Shiau AA, McGuire KL, Britt RD, Herzik Jr MA, Tezcan FA
Nature (2025) 637 pp. 991-997 [ Pubmed: 39779844 DOI: doi:10.1038/s41586-024-08311-1 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Nitrogenase iron protein 1 (31 kDa, Protein from Azotobacter vinelandii)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Protein fesii (13 kDa, Protein from Azotobacter vinelandii)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Azotobacter vinelandii filamentous 2:2:1 mofep:fep:fesii-complex (termini; c1 symmetry) (626 kDa, Complex from Azotobacter vinelandii)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Protein fesii (13 kDa, Protein from Azotobacter vinelandii)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii)
Azotobacter vinelandii filamentous 2:2:1 MoFeP:FeP:FeSII-Complex (C2 symmetry)
Resolution: 2.27 Å
EM Method: Single-particle
Fitted PDBs: 9cu2
Q-score: 0.64
Narehood SM, Cook BD, Srisantitham S, Eng VH, Shiau AA, McGuire KL, Britt RD, Herzik Jr MA, Tezcan FA
Nature (2025) 637 pp. 991-997 [ Pubmed: 39779844 DOI: doi:10.1038/s41586-024-08311-1 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Nitrogenase iron protein 1 (31 kDa, Protein from Azotobacter vinelandii)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Protein fesii (13 kDa, Protein from Azotobacter vinelandii)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Protein fesii (13 kDa, Protein from Azotobacter vinelandii)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii)
- Azotobacter vinelandii filamentous 2:2:1 mofep:fep:fesii-complex (c2 symmetry) (626 kDa, Complex from Azotobacter vinelandii)
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 [ Pubmed: 39779845 DOI: doi:10.1038/s41586-024-08355-3 ]
- Nitrogenase iron protein 1 (31 kDa, Protein from Azotobacter vinelandii)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe2/s2 (inorganic) cluster (175 Da, Ligand)
- Supercomplex of nifdk-nifh-fesii (611 kDa, Complex from Azotobacter vinelandii)
- Calcium ion (40 Da, Ligand)
- Protein fesii (13 kDa, Protein from Azotobacter vinelandii)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii)
CryoEM structure of nucleotide-free form of the nitrogenase iron protein from A. vinelandii
Resolution: 2.57 Å
EM Method: Single-particle
Fitted PDBs: 8tc3
Q-score: 0.644
Warmack RA, Wenke BB, Spatzal T, Rees DC
Nat Protoc (2024) 19 pp. 2026-2051 [ Pubmed: 38575747 DOI: doi:10.1038/s41596-024-00973-5 ]
- Homodimeric nitrogenase fe-protein (114 kDa, Complex from Azotobacter vinelandii DJ)
- Nitrogenase iron protein,fluorescent protein plum (57 kDa, Protein from Discosoma sp. LW-2004)
- Water (18 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
Iron Nitrogenase Complex from Rhodobacter capsulatus
Resolution: 2.35 Å
EM Method: Single-particle
Fitted PDBs: 8oie
Q-score: 0.666
Schmidt FV, Schulz L, Zarzycki J, Prinz S, Oehlmann NN, Erb TJ, Rebelein JG
Nat Struct Mol Biol (2024) 31 pp. 150-158 [ Pubmed: 38062208 DOI: doi:10.1038/s41594-023-01124-2 ]
- Magnesium ion (24 Da, Ligand)
- Water (18 Da, Ligand)
- Nitrogenase protein alpha chain (60 kDa, Protein from Rhodobacter capsulatus SB 1003)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nitrogenase iron protein (30 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Fefe cofactor (747 Da, Ligand)
- Nitrogenase iron-iron protein delta chain (13 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Aluminum fluoride (83 Da, Ligand)
- Nitrogenase iron-iron protein, beta subunit (50 kDa, Protein from Rhodobacter capsulatus SB 1003)
- Iron nitrogenase complex from rhodobacter capsulatus (360 kDa, Complex from Rhodobacter capsulatus SB 1003)
Resolution: 2.48 Å
EM Method: Single-particle
Fitted PDBs: 8dfc
Q-score: 0.627
Warmack RA, Wenke BB, Spatzal T, Rees DC
Nat Protoc (2024) [ Pubmed: 38575747 DOI: doi:10.1038/s41596-024-00973-5 ]
- Heterohexameric nitrogenase mofe-protein - fe-protein 1:1 complex stabilized by aluminum tetrafluoride (Complex from Azotobacter vinelandii)
- Magnesium ion (24 Da, Ligand)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Water (18 Da, Ligand)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Nitrogenase iron protein 1 (31 kDa, Protein from Azotobacter vinelandii)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii)
Resolution: 2.12 Å
EM Method: Single-particle
Fitted PDBs: 8dfd
Q-score: 0.677
Warmack RA, Wenke BB, Spatzal T, Rees DC
Nat Protoc (2024) [ Pubmed: 38575747 DOI: doi:10.1038/s41596-024-00973-5 ]
- Magnesium ion (24 Da, Ligand)
- Tetrafluoroaluminate ion (102 Da, Ligand)
- Water (18 Da, Ligand)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- Heterooctameric nitrogenase mofe-protein - fe-protein complex stabilized by aluminum tetrafluoride (Complex from Azotobacter vinelandii)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Fe (iii) ion (55 Da, Ligand)
- Nitrogenase iron protein 1 (31 kDa, Protein from Azotobacter vinelandii)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii)
Rutledge HL, Cook BD, Nguyen HPM, Herzik Jr MA, Tezcan FA
Science (2022) 377 pp. 865-869 [ Pubmed: 35901182 DOI: doi:10.1126/science.abq7641 ]
Resolution: 2.43 Å
EM Method: Single-particle
Fitted PDBs: 7ut8
Q-score: 0.597
Rutledge HL, Cook BD, Nguyen HPM, Herzik Jr MA, Tezcan FA
Science (2022) 377 pp. 865-869 [ Pubmed: 35901182 DOI: doi:10.1126/science.abq7641 ]
- Magnesium ion (24 Da, Ligand)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Water (18 Da, Ligand)
- Iron-sulfur-molybdenum cluster with interstitial carbon (787 Da, Ligand)
- Nitrogenase iron protein gamma chain (31 kDa, Protein from Azotobacter vinelandii DJ)
- 3-hydroxy-3-carboxy-adipic acid (206 Da, Ligand)
- Azotobacter vinelandii nitrogenase complex (1:1 fep:mofep, atp-bound) during catalytic n2 reduction (296 kDa, Complex from Azotobacter vinelandii DJ)
- Nitrogenase molybdenum-iron protein beta chain (59 kDa, Protein from Azotobacter vinelandii DJ)
- Fe(8)-s(7) cluster (671 Da, Ligand)
- Iron/sulfur cluster (351 Da, Ligand)
- Nitrogenase molybdenum-iron protein alpha chain (55 kDa, Protein from Azotobacter vinelandii DJ)
- Fe (iii) ion (55 Da, Ligand)