- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.35 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: 13 residues within 4Å:- Chain A: I.186, T.226, N.228, C.230, W.235, F.241, P.242, C.249, L.250, G.251, C.252, A.253
- Chain B: K.226
3 PLIP interactions:3 interactions with chain A,- Metal complexes: A:C.230, A:C.249, A:C.252
F3S.12: 13 residues within 4Å:- Chain C: I.186, T.226, N.228, C.230, W.235, F.241, P.242, C.249, L.250, G.251, C.252, A.253
- Chain D: K.226
3 PLIP interactions:3 interactions with chain C,- Metal complexes: C:C.230, C:C.249, C:C.252
- 2 x SF3: FE4-S3 CLUSTER(Non-covalent)
SF3.3: 16 residues within 4Å:- Chain A: E.16, C.17, T.18, C.19, C.20, E.76, G.113, T.114, C.115, C.120, V.121, G.148, C.149, P.150
- Chain B: R.74, H.229
9 PLIP interactions:8 interactions with chain A, 1 Ligand-Ligand interactions- Salt bridges: A:E.76
- Metal complexes: A:C.17, A:C.19, A:C.19, A:C.20, A:C.115, A:C.120, A:C.149, SF3.3
SF3.13: 16 residues within 4Å:- Chain C: E.16, C.17, T.18, C.19, C.20, E.76, G.113, T.114, C.115, C.120, V.121, G.148, C.149, P.150
- Chain D: R.74, H.229
9 PLIP interactions:8 interactions with chain C, 1 Ligand-Ligand interactions- Salt bridges: C:E.76
- Metal complexes: C:C.17, C:C.19, C:C.19, C:C.20, C:C.115, C:C.120, C:C.149, SF3.13
- 2 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)
LMT.4: 17 residues within 4Å:- Chain A: I.7, V.9, W.11, I.40, L.42, I.72, A.74, S.107, A.108, I.110, W.112, I.160, M.163, V.164, D.167, R.168, L.169
13 PLIP interactions:13 interactions with chain A- Hydrophobic interactions: A:I.7, A:I.7, A:V.9, A:V.9, A:W.11, A:I.40, A:I.72, A:I.72, A:I.72, A:I.160, A:I.160, A:M.163, A:V.164
LMT.14: 17 residues within 4Å:- Chain C: I.7, V.9, W.11, F.24, I.40, L.42, I.72, A.74, S.107, I.110, W.112, I.160, M.163, V.164, D.167, R.168, L.169
12 PLIP interactions:12 interactions with chain C- Hydrophobic interactions: C:I.7, C:I.7, C:V.9, C:V.9, C:W.11, C:I.40, C:I.72, C:I.72, C:I.160, C:M.163, C:V.164
- Water bridges: C:L.169
- 6 x CL: CHLORIDE ION(Non-functional Binders)
CL.5: 7 residues within 4Å:- Chain A: T.114, W.118, C.120, N.255, G.256, F.257, W.258
Ligand excluded by PLIPCL.6: 6 residues within 4Å:- Chain A: I.12, H.13, Y.44, D.46, F.95, K.98
Ligand excluded by PLIPCL.7: 6 residues within 4Å:- Chain A: I.152, P.153, D.154, W.235, N.236, D.237
Ligand excluded by PLIPCL.15: 7 residues within 4Å:- Chain C: T.114, W.118, C.120, N.255, G.256, F.257, W.258
Ligand excluded by PLIPCL.16: 6 residues within 4Å:- Chain C: I.12, H.13, Y.44, D.46, F.95, K.98
Ligand excluded by PLIPCL.17: 6 residues within 4Å:- Chain C: I.152, P.153, D.154, W.235, N.236, D.237
Ligand excluded by PLIP- 2 x EJ2: NI-FE REDUCED ACTIVE CENTER(Non-covalent)
EJ2.8: 14 residues within 4Å:- Chain B: C.76, V.78, C.79, V.82, H.83, A.507, P.508, R.509, L.512, V.530, P.531, T.532, C.576, C.579
9 PLIP interactions:9 interactions with chain B- Hydrogen bonds: B:R.509, B:R.509, B:T.532
- Metal complexes: B:C.76, B:C.79, B:C.79, B:C.576, B:C.579, B:C.579
EJ2.18: 14 residues within 4Å:- Chain D: C.76, V.78, C.79, V.82, H.83, A.507, P.508, R.509, L.512, V.530, P.531, T.532, C.576, C.579
9 PLIP interactions:9 interactions with chain D- Hydrogen bonds: D:R.509, D:R.509, D:T.532
- Metal complexes: D:C.76, D:C.79, D:C.79, D:C.576, D:C.579, D:C.579
- 2 x MG: MAGNESIUM ION(Non-covalent)
MG.9: 5 residues within 4Å:- Chain B: E.57, K.399, C.528, V.529, H.582
6 PLIP interactions:3 interactions with chain B, 3 Ligand-Water interactions- Metal complexes: B:E.57, B:C.528, B:H.582, H2O.8, H2O.9, H2O.9
MG.19: 4 residues within 4Å:- Chain D: E.57, K.399, C.528, H.582
6 PLIP interactions:3 interactions with chain D, 3 Ligand-Water interactions- Metal complexes: D:E.57, D:C.528, D:H.582, H2O.32, H2O.33, H2O.33
- 1 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Evans, R.M. et al., Mechanistic Exploitation of a Self-Repairing, Blocked Proton Transfer Pathway in an O2-Tolerant [NiFe]-Hydrogenase. J. Am. Chem. Soc. (2018)
- Release Date
- 2019-02-27
- Peptides
- Hydrogenase-1 small chain: AC
Hydrogenase-1 large chain: BD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
SC
TB
LD
M
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.35 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)
- 2 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)
- 6 x CL: CHLORIDE ION(Non-functional Binders)
- 2 x EJ2: NI-FE REDUCED ACTIVE CENTER(Non-covalent)
- 2 x MG: MAGNESIUM ION(Non-covalent)
- 1 x SO4: SULFATE ION(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Evans, R.M. et al., Mechanistic Exploitation of a Self-Repairing, Blocked Proton Transfer Pathway in an O2-Tolerant [NiFe]-Hydrogenase. J. Am. Chem. Soc. (2018)
- Release Date
- 2019-02-27
- Peptides
- Hydrogenase-1 small chain: AC
Hydrogenase-1 large chain: BD - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
SC
TB
LD
M