- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 2 x S5Q: FeFe cofactor(Non-covalent)
- 2 x HCA: 3-HYDROXY-3-CARBOXY-ADIPIC ACID(Non-covalent)
HCA.2: 9 residues within 4Å:- Chain A: C.51, K.82, Q.175, K.360, G.404, K.405, H.422
- Chain B: F.47
- Ligands: S5Q.1
16 PLIP interactions:16 interactions with chain A- Hydrophobic interactions: A:H.422
- Hydrogen bonds: A:K.360, A:K.405
- Water bridges: A:K.82, A:K.82, A:Q.175, A:Q.175, A:Q.175, A:R.406, A:R.406, A:N.420, A:N.420
- Salt bridges: A:K.82, A:K.360, A:H.422, A:H.422
HCA.9: 10 residues within 4Å:- Chain D: C.51, T.81, K.82, Q.175, K.360, G.404, K.405, H.422
- Chain E: F.47
- Ligands: S5Q.8
16 PLIP interactions:16 interactions with chain D- Hydrophobic interactions: D:H.422
- Hydrogen bonds: D:Q.175, D:K.360, D:K.405
- Water bridges: D:H.55, D:T.81, D:K.82, D:K.82, D:R.406, D:R.406, D:N.420, D:N.420
- Salt bridges: D:K.82, D:K.360, D:H.422, D:H.422
- 2 x CLF: FE(8)-S(7) CLUSTER(Non-covalent)
CLF.3: 17 residues within 4Å:- Chain A: C.48, Y.50, P.71, G.73, C.74, D.77, C.137, G.169
- Chain B: C.19, P.21, G.41, G.43, C.44, F.47, T.102, C.103, S.142
9 PLIP interactions:4 interactions with chain B, 5 interactions with chain A,- Metal complexes: B:C.19, B:C.44, B:C.44, B:C.103, A:C.48, A:C.74, A:C.74, A:C.137
- Salt bridges: A:D.77
CLF.12: 18 residues within 4Å:- Chain D: C.48, Y.50, P.71, G.73, C.74, D.77, C.137, G.169
- Chain E: C.19, P.21, G.41, Q.42, G.43, C.44, F.47, T.102, C.103, S.142
9 PLIP interactions:5 interactions with chain D, 4 interactions with chain E,- Salt bridges: D:D.77
- Metal complexes: D:C.48, D:C.74, D:C.74, D:C.137, E:C.19, E:C.44, E:C.44, E:C.103
- 2 x O: OXYGEN ATOM(Non-covalent)
- 2 x H2S: HYDROSULFURIC ACID(Covalent)(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.6: 4 residues within 4Å:- Chain B: Y.56, E.58, D.208
- Chain E: D.300
6 PLIP interactions:1 interactions with chain B, 1 interactions with chain E, 4 Ligand-Water interactions- Metal complexes: B:E.58, E:D.300, H2O.16, H2O.22, H2O.43, H2O.49
MG.7: 4 residues within 4Å:- Chain B: D.300
- Chain D: K.412
- Chain E: Y.56, E.58
6 PLIP interactions:1 interactions with chain B, 1 interactions with chain E, 4 Ligand-Water interactions- Metal complexes: B:D.300, E:E.58, H2O.16, H2O.24, H2O.45, H2O.48
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Trncik, C. et al., Iron-only Fe-nitrogenase underscores common catalytic principles in biological nitrogen fixation. Nat Catal (2023)
- Release Date
- 2023-06-14
- Peptides
- Nitrogenase protein alpha chain: AD
Fe-only nitrogenase, beta subunit: BE
Nitrogenase iron-iron protein delta chain: CF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
DB
BE
EC
CF
F
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.55 Å
- Oligo State
- hetero-2-2-2-mer
- Ligands
- 2 x S5Q: FeFe cofactor(Non-covalent)
- 2 x HCA: 3-HYDROXY-3-CARBOXY-ADIPIC ACID(Non-covalent)
- 2 x CLF: FE(8)-S(7) CLUSTER(Non-covalent)
- 2 x O: OXYGEN ATOM(Non-covalent)
- 2 x H2S: HYDROSULFURIC ACID(Covalent)(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Trncik, C. et al., Iron-only Fe-nitrogenase underscores common catalytic principles in biological nitrogen fixation. Nat Catal (2023)
- Release Date
- 2023-06-14
- Peptides
- Nitrogenase protein alpha chain: AD
Fe-only nitrogenase, beta subunit: BE
Nitrogenase iron-iron protein delta chain: CF - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
AD
DB
BE
EC
CF
F