Nitrogenase molybdenum-iron protein beta chain
OrganismNot specified
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 B； UniProt 1–523 Chain D； UniProt 1–523 | Not recorded | MoFe nitrogenase subunit D × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 CLF FE(8)-S(7) CLUSTER × 2 MG MAGNESIUM ION × 2 | X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；0.2 M LiSO4 x 1 H2O, 0.1 M bis-Tris/HCl at pH 6.5, 25%(w/v) of polyethylene glycol 3350 | Resolution 2.66 Å R-free 0.220 |
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 9HB9 | 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
1–523（523 aa）
Chain D
1–523（523 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Not recorded | 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 B
1–522（522 aa）
Chain D
1–522（522 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–522（522 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 B
1–522（522 aa）
Chain D
1–522（522 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 F
1–522（522 aa）
Chain H
1–522（522 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 B
1–522（522 aa）
Chain D
1–522（522 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 J
1–522（522 aa）
Chain L
1–522（522 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 B
1–522（522 aa）
Fragment：CHAINS A AND C ARE THE ALPHA CHAINS, CHAINS B AND D ARE THE BETA CHAINS
Chain D
1–522（522 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 B
1–522（522 aa）
Chain D
1–522（522 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 B
1–522（522 aa）
Chain D
1–522（522 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 J
1–522（522 aa）
Chain L
1–522（522 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 B
1–522（522 aa）
Chain D
1–522（522 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 ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
2–523（522 aa）
Chain D
2–523（522 aa）
|
Not recorded | 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 B
1–522（522 aa）
Chain D
1–522（522 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
2–523（522 aa）
Chain D
2–523（522 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
2–523（522 aa）
Chain D
2–523（522 aa）
|
Mutation：Y98H Mutation：Y98H | 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：K400D Mutation：K400D | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain F
1–523（523 aa）
Chain H
1–523（523 aa）
|
Mutation：K400D Mutation：K400D | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 3 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain J
1–523（523 aa）
Chain L
1–523（523 aa）
|
Mutation：K400D Mutation：K400D | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 4 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain N
1–523（523 aa）
Chain P
1–523（523 aa）
|
Mutation：K400D Mutation：K400D | 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：S188A Mutation：S188A | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：F99Y Mutation：F99Y | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：F99Y, S188A Mutation：F99Y, S188A | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：F99Y, S188A Mutation：F99Y, S188A | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：F99Y Mutation：F99Y | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：S188A Mutation：S188A | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：F99Y, S188A Mutation：F99Y, S188A | 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 mutation/modification Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Mutation：S188A Mutation：S188A | 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 |
| 8BTS Nitrogenase MoFe protein from A. vinelandii alpha double mutant C45A/L158C Deposited 2022-11-29 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 GOL GLYCEROL × 10 SO4 SULFATE ION × 5 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 5.5；293.15 K；The purified enzyme in 50 mM Tris/HCl pH 8.0, 300 mM NaCl, 2 mM dithionite was crystallized at 8 mg.ml-1. Crystallization was performed anaerobically in a tent containing 100 % N2 atmosphere. Crystals were obtained by initial screening at 20 degree Celsius on 96-Well MRC 2-drop crystallization plates in polystyrene (SWISSCI) containing 90 ul of crystallization solution in the reservoir. The protein sample (0.5 ul) was mixed with 0.5 ul reservoir solution. The reservoir solution contained 25 % w/v Polyethylene glycol 3,350, 100 mM BIS-TRIS at pH 5.5, and 200 mM Lithium sulfate. The plate was then incubated in a Coy tent (N2/H2, 97:3) at 20 degree Celsius. Crystals appeared after a few weeks and were soaked in the crystallization solution supplemented with 15 % v/v glycerol as a cryo-protectant before being frozen in liquid nitrogen.
|
Resolution 3.03 Å R-free 0.223 |
| 8BTS Nitrogenase MoFe protein from A. vinelandii alpha double mutant C45A/L158C Deposited 2022-11-29 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain I
1–523（523 aa）
Chain L
1–523（523 aa）
|
Not recorded | HCA 3-HYDROXY-3-CARBOXY-ADIPIC ACID × 2 ICS iron-sulfur-molybdenum cluster with interstitial carbon × 2 GOL GLYCEROL × 2 SO4 SULFATE ION × 5 1CL FE(8)-S(7) CLUSTER, OXIDIZED × 2 FE FE (III) ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 5.5；293.15 K；The purified enzyme in 50 mM Tris/HCl pH 8.0, 300 mM NaCl, 2 mM dithionite was crystallized at 8 mg.ml-1. Crystallization was performed anaerobically in a tent containing 100 % N2 atmosphere. Crystals were obtained by initial screening at 20 degree Celsius on 96-Well MRC 2-drop crystallization plates in polystyrene (SWISSCI) containing 90 ul of crystallization solution in the reservoir. The protein sample (0.5 ul) was mixed with 0.5 ul reservoir solution. The reservoir solution contained 25 % w/v Polyethylene glycol 3,350, 100 mM BIS-TRIS at pH 5.5, and 200 mM Lithium sulfate. The plate was then incubated in a Coy tent (N2/H2, 97:3) at 20 degree Celsius. Crystals appeared after a few weeks and were soaked in the crystallization solution supplemented with 15 % v/v glycerol as a cryo-protectant before being frozen in liquid nitrogen.
|
Resolution 3.03 Å R-free 0.223 |
| 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 |
| 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 B
2–523（522 aa）
Chain D
2–523（522 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 B
1–523（523 aa）
Chain D
1–523（523 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 |
| 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 B
1–523（523 aa）
Chain C
1–523（523 aa）
Chain I
1–523（523 aa）
Chain J
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 aa）
Chain I
1–523（523 aa）
Chain K
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 aa）
Chain I
1–523（523 aa）
Chain K
1–523（523 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 |
| 9HBC A. vinelandii nitrogenase MoFe protein Anc2 Deposited 2024-11-06 | Different ligand/ion Different experimental conditions Different structure-quality metrics | Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric |
Chain B
1–523（523 aa）
Chain D
1–523（523 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 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1 EDO 1,2-ETHANEDIOL × 2 MG MAGNESIUM ION × 2 |
X-RAY DIFFRACTION
X-ray crystallization conditions
VAPOR DIFFUSION, SITTING DROP；pH 6.5；293 K；4.5% (w/v) of polyethylene glycol 2000, 3350, 4000 and polyethylene glycol mono methylether 5000, 0.1 M MES/NaOH at pH 6.5, 10% (v/v) of ethylene glycol and 0.15 M Mg acetate
|
Resolution 1.82 Å R-free 0.225 |
| 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 B
1–523（523 aa）
Chain D
1–523（523 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 |
74 other PDB entries and 81 assemblies. Open the comparison page and filter oligomeric states
View Construct and Data Evidence
| UniProt name | NIFK_AZOVI |
| Isoform | — |
| PDB entities | 2 |
| Chains and sequence ranges | Author chain B； PDBConstruct 1–523； UniProt 1–523 Author chain D； PDBConstruct 1–523； UniProt 1–523 |
