Nitrogenase molybdenum-iron protein alpha chain
Azotobacter vinelandii DJ
State in the Current Structure
| Assembly | Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Associated Components | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|
| 1 | Protein heterocomplex Heteromer Protein × 4 PDB declaration: tetrameric（4） Consistent with protein copy count | Chain A； UniProt 1–492 Chain C； UniProt 1–492 | Not recorded | Nitrogenase molybdenum-iron protein beta chain × 2 （C1DGZ8） HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 UFF FE(7)-S(7) CLUSTER × 2 FE FE (III) ION × 2 NA SODIUM ION × 2 | X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；20% PEG 8000, 100 mM Tris pH 8.5, 500 mM NaCl, 10 mM dithionite | Resolution 2.20 Å R-free 0.243 |
Other States of the Same Protein in the Database
Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.
| Other PDB | Difference from Current Entry 8E3T | Assembly / Oligomeric State | Construct | Mutations and Modifications | Ligands, Ions and Non-polymers | Method and Experimental Conditions | Structure Quality |
|---|---|---|---|---|---|---|---|
| 11NA Azotobacter vinelandii MoFeP (C1 symmetry) determined using the SPT Labtech chameleon in the presence of 0x SurfACT Deposited 2026-03-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.69 Å |
| 11NB Azotobacter vinelandii MoFeP (C2 symmetry) determined using the SPT Labtech chameleon in the presence of 0x SurfACT Deposited 2026-03-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.46 Å |
| 11NC Azotobacter vinelandii MoFeP (C1 symmetry) determined using the SPT Labtech chameleon in the presence of 0.25x SurfACT Deposited 2026-03-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.16 Å |
| 11ND Azotobacter vinelandii MoFeP (C2 symmetry) determined using the SPT Labtech chameleon in the presence of 0.25x SurfACT Deposited 2026-03-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.06 Å |
| 11NE Azotobacter vinelandii MoFeP (C1 symmetry) determined using the SPT Labtech chameleon in the presence of 1x SurfACT Deposited 2026-03-05 | Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.49 Å |
| 11NF Azotobacter vinelandii MoFeP (C2 symmetry) determined using the SPT Labtech chameleon in the presence of 1x SurfACT Deposited 2026-03-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.34 Å |
| 1FP4 CRYSTAL STRUCTURE OF THE ALPHA-H195Q MUTANT OF NITROGENASE Deposited 2000-08-30 | Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Mutation：H195Q Mutation：H195Q | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFM FE-MO-S CLUSTER × 2 CLP FE-S CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
microcapillary batch diffusion；pH 8；298 K；PEG 4000, TRIS pH 8.0, sodium molybdate, microcapillary batch diffusion, temperature 298K
|
Resolution 2.50 Å R-free 0.240 |
| 1G20 MGATP-BOUND AND NUCLEOTIDE-FREE STRUCTURES OF A NITROGENASE PROTEIN COMPLEX BETWEEN LEU127DEL-FE PROTEIN AND THE MOFE PROTEIN Deposited 2000-10-16 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
1–491（491 aa）
Chain C
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFM FE-MO-S CLUSTER × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
microcapillary batch diffusion；pH 8.5；298 K；PEG 4000, sodium acetate, Tris-HCl. Ph 8.8, pH 8.5, microcapillary batch diffusion, temperature 298K
|
Resolution 2.20 Å R-free 0.255 |
| 1G21 MGATP-BOUND AND NUCLEOTIDE-FREE STRUCTURES OF A NITROGENASE PROTEIN COMPLEX BETWEEN LEU127DEL-FE PROTEIN AND THE MOFE PROTEIN Deposited 2000-10-16 | Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFM FE-MO-S CLUSTER × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 MG MAGNESIUM ION × 4 ATP ADENOSINE-5'-TRIPHOSPHATE × 4 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
microcapillary batch diffusion；pH 8.5；298 K；PEG 4000, sodium acetate, Tris-HCl. Ph 8.8, pH 8.5, microcapillary batch diffusion, temperature 298K
|
Resolution 3.00 Å R-free 0.285 |
| 1L5H FeMo-cofactor Deficient Nitrogenase MoFe Protein Deposited 2002-03-06 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–491（491 aa）
|
Not recorded | CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
LIQUID DIFFUSION；pH 9.5；298 K；PEG 8000, CHES, pH 9.5, LIQUID DIFFUSION, temperature 298K
|
Resolution 2.30 Å R-free 0.289 |
| 1M1N Nitrogenase MoFe protein from Azotobacter vinelandii Deposited 2002-06-19 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–491（491 aa）
Chain C
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFN FE(7)-MO-S(9)-N CLUSTER × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；298 K；PEG 8000, sodium chloride, TRIS, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
|
Resolution 1.16 Å R-free 0.149 |
| 1M1N Nitrogenase MoFe protein from Azotobacter vinelandii Deposited 2002-06-19 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain E
1–491（491 aa）
Chain G
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFN FE(7)-MO-S(9)-N CLUSTER × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；298 K；PEG 8000, sodium chloride, TRIS, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
|
Resolution 1.16 Å R-free 0.149 |
| 1M1Y Chemical Crosslink of Nitrogenase MoFe Protein and Fe Protein Deposited 2002-06-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
1–491（491 aa）
Chain C
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFM FE-MO-S CLUSTER × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
LIQUID DIFFUSION；pH 8；298 K；PEG 6000, NaCl, Cadaverine, Tris, pH 8.0, LIQUID DIFFUSION, temperature 298K
|
Resolution 3.20 Å R-free 0.329 |
| 1M1Y Chemical Crosslink of Nitrogenase MoFe Protein and Fe Protein Deposited 2002-06-20 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain I
1–491（491 aa）
Chain K
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFM FE-MO-S CLUSTER × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
LIQUID DIFFUSION；pH 8；298 K；PEG 6000, NaCl, Cadaverine, Tris, pH 8.0, LIQUID DIFFUSION, temperature 298K
|
Resolution 3.20 Å R-free 0.329 |
| 1N2C NITROGENASE COMPLEX FROM AZOTOBACTER VINELANDII STABILIZED BY ADP-TETRAFLUOROALUMINATE Deposited 1997-05-02 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
1–491（491 aa）
Fragment：CHAINS A AND C ARE THE ALPHA CHAINS, CHAINS B AND D ARE THE BETA CHAINS
Chain C
1–491（491 aa）
Fragment：CHAINS A AND C ARE THE ALPHA CHAINS, CHAINS B AND D ARE THE BETA CHAINS
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFM FE-MO-S CLUSTER × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 MG MAGNESIUM ION × 4 ALF TETRAFLUOROALUMINATE ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 4 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 6.5；16-20% PEG 8000, 0.1 M CACODYLATE PH 6.5 AND 20-50 MM MGCL2
|
Resolution 3.00 Å R-free 0.238 |
| 2AFH Crystal Structure of Nucleotide-Free Av2-Av1 Complex Deposited 2005-07-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
1–491（491 aa）
Chain C
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFN FE(7)-MO-S(9)-N CLUSTER × 2 PGE TRIETHYLENE GLYCOL × 8 CA CALCIUM ION × 2 NA SODIUM ION × 1 CLF FE(8)-S(7) CLUSTER × 2 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 2 PG4 TETRAETHYLENE GLYCOL × 2 1PE PENTAETHYLENE GLYCOL × 2 PEG DI(HYDROXYETHYL)ETHER × 3 P6G HEXAETHYLENE GLYCOL × 1 SF4 IRON/SULFUR CLUSTER × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.5；298 K；PEG 10000, Tris, sodium chloride, magnesium chloride, dithionite, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298 K
|
Resolution 2.10 Å R-free 0.221 |
| 2AFI Crystal Structure of MgADP bound Av2-Av1 Complex Deposited 2005-07-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
1–491（491 aa）
Chain C
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFN FE(7)-MO-S(9)-N CLUSTER × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 4 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.5；298 K；PEG8000, Sodium Chloride, Magnesium Chloride, ADP, Dithionite, TRIS, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298 K
|
Resolution 3.10 Å R-free 0.270 |
| 2AFI Crystal Structure of MgADP bound Av2-Av1 Complex Deposited 2005-07-25 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain I
1–491（491 aa）
Chain K
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFN FE(7)-MO-S(9)-N CLUSTER × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 4 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.5；298 K；PEG8000, Sodium Chloride, Magnesium Chloride, ADP, Dithionite, TRIS, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 298 K
|
Resolution 3.10 Å R-free 0.270 |
| 2MIN NITROGENASE MOFE PROTEIN FROM AZOTOBACTER VINELANDII, OXIDIZED STATE Deposited 1996-12-20 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–491（491 aa）
Chain C
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CLF FE(8)-S(7) CLUSTER × 2 CFM FE-MO-S CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 8.5；PROTEIN WAS CRYSTALLIZED USING PRECIPITATING SOLUTION OF 30% PEG 4000, 0.2M NA2MO4, 0.1M TRIS PH 8.5
|
Resolution 2.03 Å R-free 0.266 |
| 3K1A Insights into substrate binding at FeMo-cofactor in nitrogenase from the structure of an alpha-70Ile MoFe protein variant Deposited 2009-09-26 | Different construct Different mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
2–492（491 aa）
Chain C
2–492（491 aa）
|
Mutation：V70I Mutation：V70I | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFN FE(7)-MO-S(9)-N CLUSTER × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
LIQUID DIFFUSION；pH 8；298 K；30% PEG 4000, 100mM Tris-HCl pH 8.0, 170-190mM Sodium molybdate and 1mM Dithionite, LIQUID DIFFUSION, temperature 298.0K
|
Resolution 2.23 Å R-free 0.254 |
| 3MIN NITROGENASE MOFE PROTEIN FROM AZOTOBACTER VINELANDII, OXIDIZED STATE Deposited 1996-12-20 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–491（491 aa）
Chain C
1–491（491 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CFM FE-MO-S CLUSTER × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
pH 8.5；PROTEIN WAS CRYSTALLIZED USING PRECIPITATING SOLUTION OF 30% PEG 4000, 0.2M NA2MO4, 0.1M TRIS PH 8.5 SOAKED IN SOAKED IN SODIUM DITHIONITE, 10MM FINAL CONC.
|
Resolution 2.03 Å R-free 0.264 |
| 3U7Q A. vinelandii nitrogenase MoFe protein at atomic resolution Deposited 2011-10-14 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 IMD IMIDAZOLE × 8 CA CALCIUM ION × 2 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 CLF FE(8)-S(7) CLUSTER × 2 MG MAGNESIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；291 K；16.5% v/v PEG6000, 0.55 M sodium chloride, 12.5% v/v MPD, 1.5% v/v xylitol, 0.2 M imidazole/malate buffer, pH 8.0, 0.1 mM Zwittergent 3-14, 0.55 mM spermine, VAPOR DIFFUSION, SITTING DROP, temperature 291K
|
Resolution 1.00 Å R-free 0.146 |
| 4ND8 Av Nitrogenase MoFe Protein High pH Form Deposited 2013-10-25 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION；pH 9.79；295 K；150 mM ACES, 75 mM Tris and 75 mM ethanolamine, pH 9.79, 17%-18% PEG 3350, 0.8 M NaCl, 1 mM sodium dithionite, VAPOR DIFFUSION, temperature 295.K
|
Resolution 2.00 Å R-free 0.204 |
| 4TKU Reactivated Nitrogenase MoFe-protein from A. vinelandii Deposited 2014-05-27 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 IMD IMIDAZOLE × 8 CL CHLORIDE ION × 2 CLF FE(8)-S(7) CLUSTER × 2 FE2 FE (II) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；294 K；PEG4000, NaCl, imidazole/malate, glycerol, sodium dithionite
|
Resolution 1.43 Å R-free 0.142 |
| 4TKV CO-bound Nitrogenase MoFe-protein from A. vinelandii Deposited 2014-05-28 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICE iron-sulfur-molybdenum cluster with interstitial carbon × 4 IMD IMIDAZOLE × 8 CMO CARBON MONOXIDE × 6 CLF FE(8)-S(7) CLUSTER × 2 FE2 FE (II) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；294 K；PEG4000, NaCl, imidazole/malate, Glycerol, sodium dithionite
|
Resolution 1.50 Å R-free 0.154 |
| 4WNA Structure of the Nitrogenase MoFe Protein from Azotobacter vinelandii Pressurized with Xenon Deposited 2014-10-11 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 XE XENON × 6 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；297 K；PEG 6000, sodium chloride, xylitol, imidazole/malate, spermine, Zwittergent
|
Resolution 2.00 Å R-free 0.219 |
| 4WZA Asymmetric Nucleotide Binding in the Nitrogenase Complex Deposited 2014-11-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 SF4 IRON/SULFUR CLUSTER × 2 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 2 ACP PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.5；298 K；18-22% PEG 8000, 0-50 mM NaCl, 100 mM Tris pH 8.5, 10 mM sodium dithionite, 10 mM MgCl2, 5 mM AMPPCP, 5 mM ADP
|
Resolution 1.90 Å R-free 0.187 |
| 4WZB Crystal Structure of MgAMPPCP-bound Av2-Av1 complex Deposited 2014-11-19 | Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE2 FE (II) ION × 2 MG MAGNESIUM ION × 4 ACP PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER × 4 SF4 IRON/SULFUR CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.5；298 K；PEG 8000, TRIS, SODIUM CHLORIDE, MAGNESIUM CHLORIDE, DITHIONITE, AMPPCP, PH 8.5
|
Resolution 2.30 Å R-free 0.255 |
| 4XPI Fe protein independent substrate reduction by nitrogenase variants altered in intramolecular electron transfer Deposited 2015-01-17 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
3–492（490 aa）
Chain C
3–492（490 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 GOL GLYCEROL × 15 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 CA CALCIUM ION × 2 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
LIQUID DIFFUSION；pH 8；298 K；30% PEG 4000, 100mM Tris-HCl pH 8.0, 170-190mM Sodium molybdate and 1mM Dithionite, LIQUID DIFFUSION, temperature 298.0K
|
Resolution 1.97 Å R-free 0.264 |
| 5BVG Selenium incorporated nitrogenase MoFe-protein (Av1-Se2B) from A. vinelandii Deposited 2015-06-05 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICG iron-sulfur-molybdenum cluster with interstitial carbon with selenium incorporated × 2 IMD IMIDAZOLE × 9 CL CHLORIDE ION × 2 CLF FE(8)-S(7) CLUSTER × 2 FE2 FE (II) ION × 2 SE SELENIUM ATOM × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；PEG 8000, NaCl, Imidazole/Malate, Sodiumdithionite
|
Resolution 1.60 Å R-free 0.179 |
| 5BVH CO-bound form of Selenium incorporated nitrogenase MoFe-protein (Av1-Se-CO) from A. vinelandii Deposited 2015-06-05 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 ICH iron-sulfur-molybdenum cluster with interstitial carbon with selenium incorporated × 2 IMD IMIDAZOLE × 8 CL CHLORIDE ION × 2 CMO CARBON MONOXIDE × 2 CLF FE(8)-S(7) CLUSTER × 2 FE2 FE (II) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；PEG 8000, NaCl, Imidazole/Malate, Sodiumdithionite
|
Resolution 1.53 Å R-free 0.160 |
| 5CX1 Nitrogenase molybdenum-iron protein beta-K400E mutant Deposited 2015-07-28 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–480（480 aa）
Chain C
1–480（480 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；100 mM Tris pH 8, 600 mM NaCl, 18% PEG 10000, 5 mM sodium dithionite
|
Resolution 1.75 Å R-free 0.245 |
| 5CX1 Nitrogenase molybdenum-iron protein beta-K400E mutant Deposited 2015-07-28 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain E
1–480（480 aa）
Chain G
1–480（480 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；100 mM Tris pH 8, 600 mM NaCl, 18% PEG 10000, 5 mM sodium dithionite
|
Resolution 1.75 Å R-free 0.245 |
| 5CX1 Nitrogenase molybdenum-iron protein beta-K400E mutant Deposited 2015-07-28 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain I
1–480（480 aa）
Chain K
1–480（480 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；100 mM Tris pH 8, 600 mM NaCl, 18% PEG 10000, 5 mM sodium dithionite
|
Resolution 1.75 Å R-free 0.245 |
| 5CX1 Nitrogenase molybdenum-iron protein beta-K400E mutant Deposited 2015-07-28 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 4 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain M
1–480（480 aa）
Chain O
1–480（480 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；100 mM Tris pH 8, 600 mM NaCl, 18% PEG 10000, 5 mM sodium dithionite
|
Resolution 1.75 Å R-free 0.245 |
| 5VQ4 Nitrogenase Av1 at pH 5 Deposited 2017-05-07 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；293 K；PEG 4000, sodium chloride, imidazole/malate, sodium dithionite
|
Resolution 2.30 Å R-free 0.222 |
| 6BBL Crystal structure of the a-96Gln MoFe protein variant in the presence of the substrate acetylene Deposited 2017-10-18 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | C2H acetylene × 2 IMD IMIDAZOLE × 3 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 FE FE (III) ION × 2 MG MAGNESIUM ION × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
MICROBATCH；pH 8；295 K；30% w/v PEG4000, 0.1 M Tris, pH 8.0, 0.17 M sodium molybdate, 0.001 M sodium dithionite
|
Resolution 1.68 Å R-free 0.185 |
| 6CDK Characterization of the P1+ intermediate state of nitrogenase P-cluster Deposited 2018-02-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
LIQUID DIFFUSION；pH 8；298 K；30% PEG4000, 100 mM Tris-HCl, pH 8.0, 170-190 mM sodium molybdate, 1 mM dithionite
|
Resolution 2.10 Å R-free 0.263 |
| 6O7L Nitrogenase MoFeP mutant S188A from Azotobacter vinelandii in the dithionite reduced state after redox cycling Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；18% PEG 8000, 100 mM Tris pH 7.5, 500 mM NaCl, 10 mM dithionite
|
Resolution 2.26 Å R-free 0.254 |
| 6O7M Nitrogenase MoFeP mutant F99Y from Azotobacter vinelandii in the indigo carmine oxidized state Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.3；293 K；18% PEG 8000, 100 mM Tris pH 8.3, 500 mM NaCl, 5 mM indigo carmine (IDS)
|
Resolution 1.40 Å R-free 0.208 |
| 6O7N Nitrogenase MoFeP mutant F99Y/S188A from Azotobacter vinelandii in the indigo carmine oxidized state Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.8；293 K；18% PEG 8000, 100 mM Tris pH 7.8, 500 mM NaCl, 5 mM indigo carmine
|
Resolution 1.75 Å R-free 0.223 |
| 6O7O Nitrogenase MoFeP mutant F99Y/S188A from Azotobacter vinelandii in the dithionite reduced state after redox cycling Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.5；293 K；18% PEG 8000, 100 mM Tris pH 8.5, 500 mM NaCl, 10 mM dithionite. Protein was redox cycled with 5 mM indigo carmine and 10 mM dithionite prior to crystallization.
|
Resolution 1.89 Å R-free 0.186 |
| 6O7P Nitrogenase MoFeP mutant F99Y from Azotobacter vinelandii in the dithionite reduced state Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.3；293 K；22% PEG 8000, 100 mM Tris pH 8.3, 500 mM NaCl, 10 mM dithionite
|
Resolution 1.70 Å R-free 0.201 |
| 6O7Q Nitrogenase MoFeP mutant S188A from Azotobacter vinelandii in the dithionite reduced state after redox cycling Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | CLF FE(8)-S(7) CLUSTER × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；20% PEG 8000, 100 mM Tris pH 8.0, 500 mM NaCl, 10 mM dithionite. Protein was redox cycled with 5 mM indigo carmine and 10 mM dithionite prior to crystallization.
|
Resolution 2.00 Å R-free 0.229 |
| 6O7R Nitrogenase MoFeP mutant F99Y, S188A from Azotobacter vinelandii in the dithionite reduced state Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；20% PEG 8000, 100 mM Tris pH 8.0, 500 mM NaCl, 10 mM dithionite
|
Resolution 2.27 Å R-free 0.208 |
| 6O7S Nitrogenase MoFeP mutant S188A from Azotobacter vinelandii in the indigo carmine oxidized state Deposited 2019-03-08 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 NA SODIUM ION × 2 LPJ FE(6)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；293 K；20% PEG 8000, 100 mM Tris pH 8.0, 500 mM NaCl
|
Resolution 2.27 Å R-free 0.208 |
| 6OP1 Selenium incorporated, carbon monoxide inhibited FeMo-cofactor of azotobacter vinelandii Deposited 2019-04-24 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 IMD IMIDAZOLE × 9 CMO CARBON MONOXIDE × 2 MG MAGNESIUM ION × 5 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；291 K；26% v/v PEG6000, 0.75 M sodium chloride, 12.5% v/v MPD, 0.1 M imidazole/malate buffer, pH 8.0, 5 mM Na2S2O4
|
Resolution 1.70 Å R-free 0.165 |
| 6OP2 Selenium incorporated FeMo-cofactor of nitrogenase from azotobacter vinelandii at high concentration of selenium Deposited 2019-04-24 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 IMD IMIDAZOLE × 11 SE SELENIUM ATOM × 2 CA CALCIUM ION × 2 CLF FE(8)-S(7) CLUSTER × 2 MG MAGNESIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；291 K；26% v/v PEG6000, 0.75 M sodium chloride, 12.5% v/v MPD, 0.1 M imidazole/malate buffer, pH 8.0, 5 mM Na2S2O4
|
Resolution 1.90 Å R-free 0.214 |
| 6OP3 Selenium incorporated FeMo-cofactor of nitrogenase from Azotobacter vinelandii with low concentration of selenium Deposited 2019-04-24 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 IMD IMIDAZOLE × 12 SE SELENIUM ATOM × 2 CLF FE(8)-S(7) CLUSTER × 2 MG MAGNESIUM ION × 2 CA CALCIUM ION × 4 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；291 K；26% v/v PEG6000, 0.75 M sodium chloride, 12.5% v/v MPD, 0.1 M imidazole/malate buffer, pH 8.0, 5 mM Na2S2O4
|
Resolution 1.60 Å R-free 0.152 |
| 6OP4 Selenium-incorporated, carbon monoxide-inhibited, reactivated FeMo-cofactor of nitrogenase from Azotobacter vinelandii Deposited 2019-04-24 | Different construct Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 IMD IMIDAZOLE × 9 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 MG MAGNESIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8；291 K；26% v/v PEG6000, 0.75 M sodium chloride, 12.5% v/v MPD, 0.1 M imidazole/malate buffer, pH 8.0, 5 mM Na2S2O4
|
Resolution 2.30 Å R-free 0.223 |
| 6UG0 N2-bound Nitrogenase MoFe-protein from Azotobacter vinelandii Deposited 2019-09-25 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICE iron-sulfur-molybdenum cluster with interstitial carbon × 1 HDZ NITROGEN MOLECULE × 3 H2S HYDROSULFURIC ACID × 6 MO MOLYBDENUM ATOM × 8 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 FE FE (III) ION × 2 GOL GLYCEROL × 6 PGE TRIETHYLENE GLYCOL × 1 ICZ iron-sulfur-molybdenum cluster with interstitial carbon × 1 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 5；293 K；14-19 % w/v PEG smear high, 0.16M ammonium acetate, 0.1M sodium citrate (pH 5.0), 25.6 % v/v glycerol, 5mM Eu(II)-EGTA
|
Resolution 1.83 Å R-free 0.259 |
| 6VXT Activated Nitrogenase MoFe-protein from Azotobacter vinelandii Deposited 2020-02-24 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 MO MOLYBDENUM ATOM × 8 H2S HYDROSULFURIC ACID × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 GOL GLYCEROL × 7 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 5；293 K；14-19 % w/v PEG smear high, 0.16 M ammonium acetate, 0.1 M sodium citrate(pH 5.0), 25.6 % v/v glycerol, 5 mM sodium dithionite
|
Resolution 1.74 Å R-free 0.203 |
| 7JRF CO-CO-BOUND NITROGENASE MOFE-PROTEIN FROM A. VINELANDII Deposited 2020-08-12 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICE iron-sulfur-molybdenum cluster with interstitial carbon × 2 IMD IMIDAZOLE × 8 H2S HYDROSULFURIC ACID × 2 CMO CARBON MONOXIDE × 4 CLF FE(8)-S(7) CLUSTER × 2 CA CALCIUM ION × 2 MG MAGNESIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.5；293 K；Peg 4000, sodium chloride, imidazole / malate, glycerol, spermine
|
Resolution 1.33 Å R-free 0.150 |
| 7MCI MoFe protein from Azotobacter vinelandii with a sulfur-replenished cofactor Deposited 2021-04-02 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 H2S HYDROSULFURIC ACID × 2 MO MOLYBDENUM ATOM × 6 CLF FE(8)-S(7) CLUSTER × 2 GOL GLYCEROL × 11 CA CALCIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 5；293 K；0.1M CHC (pH5), 0.16M ammonium acetate, 25.6% (v/v) glycerol, 2% MPD, 0.1M CsCl, 1mM Dithiothreitol, 5mM Eu-EGTA, 16% PEG smear high
|
Resolution 1.65 Å R-free 0.195 |
| 7UT6 C1 symmetric cryoEM structure of Azotobacter vinelandii MoFeP under non-turnover conditions Deposited 2022-04-26 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8；Solutions were prepared and filtered immediately prior to the experiment.
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；Custom manual plunger.
Greater than 95% humidity.
|
Resolution 1.91 Å |
| 7UT7 C2 symmetric cryoEM structure of Azotobacter vinelandii MoFeP under non-turnover conditions Deposited 2022-04-26 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8；Solutions were prepared and filtered immediately prior to the experiment.
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；Custom manual plunger.
Greater than 95% humidity.
|
Resolution 1.91 Å |
| 7UT8 CryoEM structure of Azotobacter vinelandii nitrogenase complex (1:1 FeP:MoFeP, ATP-bound) during catalytic N2 reduction Deposited 2022-04-26 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 SF4 IRON/SULFUR CLUSTER × 1 MG MAGNESIUM ION × 2 ATP ADENOSINE-5'-TRIPHOSPHATE × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8；Solutions were prepared and filtered immediately prior to the experiment.
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；Custom manual plunger.
Greater than 95% humidity.
|
Resolution 2.43 Å |
| 7UT9 CryoEM structure of Azotobacter vinelandii nitrogenase complex (1:1 FeP:MoFeP, ADP/ATP-bound) during catalytic N2 reduction Deposited 2022-04-26 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 MG MAGNESIUM ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 1 SF4 IRON/SULFUR CLUSTER × 1 ATP ADENOSINE-5'-TRIPHOSPHATE × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8；Solutions were prepared and filtered immediately prior to the experiment.
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；Custom manual plunger.
Greater than 95% humidity.
|
Resolution 2.44 Å |
| 7UTA CryoEM structure of Azotobacter vinelandii nitrogenase complex (2:1 FeP:MoFeP) inhibited by BeFx during catalytic N2 reduction Deposited 2022-04-26 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 SF4 IRON/SULFUR CLUSTER × 2 MG MAGNESIUM ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 4 0BE BERYLLIUM × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8；Solutions were prepared and filtered immediately prior to the experiment.
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；Custom manual plunger.
Greater than 95% humidity.
|
Resolution 2.40 Å |
| 8CRS CryoEM Structure of nitrogenase MoFe-protein in detergent Deposited 2022-05-11 | Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–480（480 aa）
Chain C
1–480（480 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 1N7 CHAPSO × 4 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.04 Å |
| 8DBX CryoEM structure of partially oxidized MoFe-protein on ultrathin carbon Deposited 2022-06-14 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CLF FE(8)-S(7) CLUSTER × 2 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 1.92 Å |
| 8DBY CryoEM structure of anaerobically prepared nitrogenase MoFe-protein on ultrathin carbon Deposited 2022-06-15 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.26 Å |
| 8DFC CryoEM structure of the 1:1 ADP-tetrafluoroaluminate stabilized nitrogenase complex from Azotobacter vinelandii Deposited 2022-06-21 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 SF4 IRON/SULFUR CLUSTER × 1 ADP ADENOSINE-5'-DIPHOSPHATE × 2 ALF TETRAFLUOROALUMINATE ION × 2 MG MAGNESIUM ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.48 Å |
| 8DFD CryoEM structure of the 2:1 ADP-tetrafluoroaluminate stabilized nitrogenase complex from Azotobacter vinelandii Deposited 2022-06-21 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 8 PDB declaration: octameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 SF4 IRON/SULFUR CLUSTER × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 4 ALF TETRAFLUOROALUMINATE ION × 4 MG MAGNESIUM ION × 4 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.12 Å |
| 8DPN CryoEM structure of Azotobacter vinelandii nitrogenase MoFeP during catalytic N2 reduction Deposited 2022-07-15 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8；Solutions were prepared and filtered immediately prior to the experiment.
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE；Custom manual plunger.
Greater than 95% humidity.
|
Resolution 2.49 Å |
| 8E3U Nickel-reconstituted nitrogenase MoFeP mutant S188A from Azotobacter vinelandii after IDS oxidation Deposited 2022-08-17 | Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | UFF FE(7)-S(7) CLUSTER × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 NA SODIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 8.25；293 K；18% PEG 8000, 100 mM Tris pH 8.25, 500 mM NaCl, 10 mM dithionite
|
Resolution 1.99 Å R-free 0.253 |
| 8E3V Cobalt-reconstituted nitrogenase MoFeP mutant S188A from Azotobacter vinelandii after IDS oxidation Deposited 2022-08-17 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 7.75；293 K；20% PEG 8000, 100 mM Tris pH 7.75, 500 mM NaCl, 10 mM dithionite
|
Resolution 2.00 Å R-free 0.208 |
| 8ENL CryoEM structure of the high pH turnover-inactivated nitrogenase MoFe-protein Deposited 2022-09-30 | Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 UNX UNKNOWN LIGAND × 2 CLF FE(8)-S(7) CLUSTER × 2 1N7 CHAPSO × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.37 Å |
| 8ENM CryoEM structure of the high pH nitrogenase MoFe-protein under non-turnover conditions Deposited 2022-09-30 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.14 Å |
| 8ENN Homocitrate-deficient nitrogenase MoFe-protein from Azotobacter vinelandii nifV knockout Deposited 2022-09-30 | Different construct Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 1N7 CHAPSO × 2 FE FE (III) ION × 2 CIT CITRIC ACID × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.58 Å |
| 8ENO Homocitrate-deficient nitrogenase MoFe-protein from A. vinelandii nifV knockout in complex with NafT Deposited 2022-09-30 | Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric |
Chain A
4–480（477 aa）
Chain C
4–480（477 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CIT CITRIC ACID × 1 CLF FE(8)-S(7) CLUSTER × 2 1N7 CHAPSO × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.71 Å |
| 8RHP Cryo-EM structure of the molybdenum nitrogenase complexed with iron protein (NifH) and Shethna protein II (FeSII) Deposited 2023-12-15 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 14 PDB declaration: 14-meric |
Chain A
1–492（492 aa）
Chain D
1–492（492 aa）
Chain H
1–492（492 aa）
Chain K
1–492（492 aa）
|
Not recorded | CLF FE(8)-S(7) CLUSTER × 4 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 4 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 4 CA CALCIUM ION × 4 FES FE2/S2 (INORGANIC) CLUSTER × 2 SF4 IRON/SULFUR CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.4
cryo-EM vitrification conditions
Cryogen ETHANE
|
Resolution 2.89 Å |
| 9CJB CryoEM structure of nitrogenase MoFe-protein 60 minute time point under alkaline turnover Deposited 2024-07-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 9.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 1.97 Å |
| 9CJC CryoEM structure of nitrogenase MoFe-protein 20 minute time point under alkaline turnover Deposited 2024-07-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 1 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 9.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.04 Å |
| 9CJD CryoEM structure of nitrogenase MoFe-protein 5 minute time point under alkaline turnover Deposited 2024-07-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 1 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 9.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 1.92 Å |
| 9CJE CryoEM structure of nitrogenase MoFe-protein 20 second time point under alkaline turnover Deposited 2024-07-05 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 1 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 9.5
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.22 Å |
| 9CJF CryoEM structure of alkaline-inactivated nitrogenase MoFe-protein in complex with NafT Deposited 2024-07-05 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 1N7 CHAPSO × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.8
cryo-EM vitrification conditions
Cryogen ETHANE-PROPANE
|
Resolution 2.33 Å |
| 9CQX Azotobacter vinelandii Oxidized MoFeP (C1 symmetry) obtained using the SPT Labtech chameleon Deposited 2024-07-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.51 Å |
| 9CQY Azotobacter vinelandii Oxidized MoFeP (C2 symmetry) obtained using the SPT Labtech chameleon Deposited 2024-07-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.39 Å |
| 9CQZ Azotobacter vinelandii Reduced MoFeP (C1 symmetry) obtained using the SPT Labtech chameleon of 20 mM sodium dithionite under Al's oil Deposited 2024-07-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.19 Å |
| 9CR0 Azotobacter vinelandii Reduced MoFeP (C2 symmetry) obtained using the SPT Labtech chameleon of 20 mM sodium dithionite under Al's oil Deposited 2024-07-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.08 Å |
| 9CTZ Azotobacter vinelandii MoFeP (C2 symmetry) Deposited 2024-07-25 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.67 Å |
| 9CU0 Azotobacter vinelandii 1:1:1 MoFeP:FeP:FeSII-Complex (C1 symmetry) Deposited 2024-07-25 | Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 CLF FE(8)-S(7) CLUSTER × 2 FE FE (III) ION × 2 ADP ADENOSINE-5'-DIPHOSPHATE × 2 MG MAGNESIUM ION × 2 SF4 IRON/SULFUR CLUSTER × 1 FES FE2/S2 (INORGANIC) CLUSTER × 1 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 3.94 Å |
| 9CU1 Azotobacter vinelandii filamentous 2:2:1 MoFeP:FeP:FeSII-Complex (termini; C1 symmetry) Deposited 2024-07-25 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 14 PDB declaration: 14-meric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
Chain H
1–492（492 aa）
Chain J
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 4 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 4 CLF FE(8)-S(7) CLUSTER × 4 FE FE (III) ION × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 4 MG MAGNESIUM ION × 4 SF4 IRON/SULFUR CLUSTER × 2 FES FE2/S2 (INORGANIC) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.83 Å |
| 9CU2 Azotobacter vinelandii filamentous 2:2:1 MoFeP:FeP:FeSII-Complex (C2 symmetry) Deposited 2024-07-25 | Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 14 PDB declaration: 14-meric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
Chain H
1–492（492 aa）
Chain J
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 4 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 4 FE FE (III) ION × 4 CLF FE(8)-S(7) CLUSTER × 4 ADP ADENOSINE-5'-DIPHOSPHATE × 4 MG MAGNESIUM ION × 4 SF4 IRON/SULFUR CLUSTER × 2 FES FE2/S2 (INORGANIC) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 8
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.27 Å |
| 9MLY Azotobacter vinelandii Reduced MoFeP (C1 symmetry) obtained using the SPT Labtech chameleon of 5 mM sodium dithionite under Al's oil Deposited 2024-12-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.33 Å |
| 9MLZ Azotobacter vinelandii Reduced MoFeP (C2 symmetry) obtained using the SPT Labtech chameleon of 5 mM sodium dithionite under Al's oil Deposited 2024-12-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.19 Å |
| 9MM0 Azotobacter vinelandii Reduced MoFeP (C1 symmetry) obtained using the SPT Labtech chameleon of 60 mM sodium dithionite under Al's oil Deposited 2024-12-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.19 Å |
| 9MM1 Azotobacter vinelandii Reduced MoFeP (C2 symmetry) obtained using the SPT Labtech chameleon of 60 mM sodium dithionite under Al's oil Deposited 2024-12-19 | Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain A
1–492（492 aa）
Chain C
1–492（492 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 FE FE (III) ION × 2 CLF FE(8)-S(7) CLUSTER × 2 |
ELECTRON MICROSCOPY
cryo-EM buffer
pH 7.5
cryo-EM vitrification conditions
Cryogen ETHANE；Samples were frozen with the SPT Labtech chameleon
|
Resolution 2.08 Å |
83 other PDB entries and 89 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | NIFD_AZOVI |
| Isoform | — |
| PDB entities | 1 |
| Chains and sequence ranges | Author chain A； PDBConstruct 1–492； UniProt 1–492 Author chain C； PDBConstruct 1–492； UniProt 1–492 |
