- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.40 Å
- Oligo State
- hetero-2-2-mer
- Ligands
- 2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 2 x F3S: FE3-S4 CLUSTER(Non-covalent)
F3S.2: 10 residues within 4Å:- Chain A: T.223, N.225, C.227, W.232, P.239, C.246, L.247, G.248, C.249
- Chain B: K.225
3 PLIP interactions:3 interactions with chain A,- Metal complexes: A:C.227, A:C.246, A:C.249
F3S.11: 10 residues within 4Å:- Chain C: T.223, N.225, C.227, W.232, P.239, C.246, L.247, G.248, C.249
- Chain D: K.225
3 PLIP interactions:3 interactions with chain C,- Metal complexes: C:C.227, C:C.246, C:C.249
- 2 x SF3: FE4-S3 CLUSTER(Non-covalent)
SF3.3: 12 residues within 4Å:- Chain A: E.13, C.14, T.15, C.16, C.17, E.73, T.111, C.112, C.117, G.145, C.146
- Chain B: R.73
10 PLIP interactions:9 interactions with chain A, 1 Ligand-Water interactions- Salt bridges: A:E.13, A:E.73
- Metal complexes: A:C.14, A:C.16, A:C.16, A:C.17, A:C.112, A:C.117, A:C.146, H2O.4
SF3.12: 12 residues within 4Å:- Chain C: E.13, C.14, T.15, C.16, C.17, E.73, T.111, C.112, C.117, G.145, C.146
- Chain D: R.73
10 PLIP interactions:9 interactions with chain C, 1 Ligand-Water interactions- Salt bridges: C:E.13, C:E.73
- Metal complexes: C:C.14, C:C.16, C:C.16, C:C.17, C:C.112, C:C.117, C:C.146, H2O.26
- 4 x CL: CHLORIDE ION(Non-functional Binders)
CL.4: 4 residues within 4Å:- Chain A: T.111, W.115, C.117, G.253
Ligand excluded by PLIPCL.5: 4 residues within 4Å:- Chain A: I.9, H.10, D.43, K.95
Ligand excluded by PLIPCL.13: 4 residues within 4Å:- Chain C: T.111, W.115, C.117, G.253
Ligand excluded by PLIPCL.14: 4 residues within 4Å:- Chain C: I.9, H.10, D.43, K.95
Ligand excluded by PLIP- 4 x SO4: SULFATE ION(Non-functional Binders)
SO4.6: 5 residues within 4Å:- Chain A: R.208
- Chain B: G.479, N.480, L.481, A.482
3 PLIP interactions:2 interactions with chain B, 1 interactions with chain A- Hydrogen bonds: B:L.481, B:A.482
- Salt bridges: A:R.208
SO4.15: 2 residues within 4Å:- Chain C: K.215, R.263
2 PLIP interactions:2 interactions with chain C- Salt bridges: C:K.215, C:R.263
SO4.16: 5 residues within 4Å:- Chain C: R.208
- Chain D: G.479, N.480, L.481, A.482
5 PLIP interactions:3 interactions with chain C, 2 interactions with chain D- Water bridges: C:R.208, C:R.208
- Salt bridges: C:R.208
- Hydrogen bonds: D:L.481, D:A.482
SO4.20: 1 residues within 4Å:- Chain D: R.393
1 PLIP interactions:1 interactions with chain D- Salt bridges: D:R.393
- 2 x FCO: CARBONMONOXIDE-(DICYANO) IRON(Non-covalent)
FCO.7: 13 residues within 4Å:- Chain B: C.78, V.81, H.82, A.506, P.507, K.508, L.511, V.529, P.530, T.531, C.575, C.578
- Ligands: NI.8
6 PLIP interactions:5 interactions with chain B, 1 Ligand-Water interactions- Hydrogen bonds: B:K.508, B:K.508, B:T.531, B:T.531
- Metal complexes: B:C.578, H2O.17
FCO.17: 13 residues within 4Å:- Chain D: C.78, V.81, H.82, A.506, P.507, K.508, L.511, V.529, P.530, T.531, C.575, C.578
- Ligands: NI.18
6 PLIP interactions:5 interactions with chain D, 1 Ligand-Water interactions- Hydrogen bonds: D:K.508, D:K.508, D:T.531, D:T.531
- Metal complexes: D:C.578, H2O.45
- 2 x NI: NICKEL (II) ION(Non-covalent)
NI.8: 5 residues within 4Å:- Chain B: C.75, C.78, C.575, C.578
- Ligands: FCO.7
4 PLIP interactions:3 interactions with chain B, 1 Ligand-Water interactions- Metal complexes: B:C.75, B:C.575, B:C.578, H2O.17
NI.18: 5 residues within 4Å:- Chain D: C.75, C.78, C.575, C.578
- Ligands: FCO.17
4 PLIP interactions:3 interactions with chain D, 1 Ligand-Water interactions- Metal complexes: D:C.75, D:C.575, D:C.578, H2O.45
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.9: 3 residues within 4Å:- Chain B: E.56, C.527, H.581
6 PLIP interactions:3 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:E.56, B:C.527, B:H.581, H2O.9, H2O.9, H2O.10
MG.19: 3 residues within 4Å:- Chain D: E.56, C.527, H.581
6 PLIP interactions:3 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:E.56, D:C.527, D:H.581, H2O.34, H2O.34, H2O.34
- 1 x LI: LITHIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Evans, R.M. et al., Mechanism of Hydrogen Activation by [Nife] Hydrogenases. Nat.Chem.Biol. (2016)
- Release Date
- 2014-12-24
- Peptides
- Hydrogenase-1 small chain: AC
Hydrogenase-1 large chain: BD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
SSSC
TTTB
LLLD
MMM
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.40 Å
- Oligo State
- hetero-2-2-mer
- Ligands
- 2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 2 x F3S: FE3-S4 CLUSTER(Non-covalent)
- 2 x SF3: FE4-S3 CLUSTER(Non-covalent)
- 4 x CL: CHLORIDE ION(Non-functional Binders)
- 4 x SO4: SULFATE ION(Non-functional Binders)
- 2 x FCO: CARBONMONOXIDE-(DICYANO) IRON(Non-covalent)
- 2 x NI: NICKEL (II) ION(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 1 x LI: LITHIUM ION(Non-covalent)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Evans, R.M. et al., Mechanism of Hydrogen Activation by [Nife] Hydrogenases. Nat.Chem.Biol. (2016)
- Release Date
- 2014-12-24
- Peptides
- Hydrogenase-1 small chain: AC
Hydrogenase-1 large chain: BD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
SSSC
TTTB
LLLD
MMM