- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.06 Å
- Oligo State
- hetero-oligomer
- Ligands
- 2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 1 x F3S: FE3-S4 CLUSTER(Non-covalent)
- 8 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
MPD.4: 8 residues within 4Å:- Chain A: T.114, F.115, N.132, D.133, K.136, N.144, L.174, N.175
8 PLIP interactions:8 interactions with chain A- Hydrophobic interactions: A:F.115, A:N.132, A:L.174, A:N.175
- Hydrogen bonds: A:N.132, A:N.144
- Water bridges: A:N.132, A:N.132
MPD.5: 5 residues within 4Å:- Chain A: H.186, F.195, Y.216, P.223, V.224
3 PLIP interactions:3 interactions with chain A- Hydrophobic interactions: A:F.195, A:P.223
- Hydrogen bonds: A:P.223
MPD.6: 8 residues within 4Å:- Chain A: R.191, A.209, R.210, K.211, G.212, D.242
- Chain B: Y.228, D.229
3 PLIP interactions:2 interactions with chain A, 1 interactions with chain B- Hydrogen bonds: A:R.210
- Water bridges: A:R.191
- Hydrophobic interactions: B:Y.228
MPD.7: 2 residues within 4Å:- Chain A: P.65, H.66
1 PLIP interactions:1 interactions with chain A- Hydrogen bonds: A:P.65
MPD.8: 6 residues within 4Å:- Chain A: D.31
- Chain B: A.150, V.151, K.154, L.194, R.198
2 PLIP interactions:1 interactions with chain A, 1 interactions with chain B- Water bridges: A:D.31
- Hydrophobic interactions: B:L.194
MPD.9: 10 residues within 4Å:- Chain A: P.5, S.6, H.66, G.67, F.68, I.69, Q.104, Y.162, L.163, K.166
7 PLIP interactions:7 interactions with chain A- Hydrophobic interactions: A:P.5, A:I.69, A:I.69, A:Y.162, A:L.163
- Water bridges: A:S.6, A:H.66
MPD.12: 2 residues within 4Å:- Chain B: K.341, D.348
1 PLIP interactions:1 interactions with chain B- Hydrogen bonds: B:K.341
MPD.13: 9 residues within 4Å:- Chain B: F.305, L.373, Y.376, S.377, T.387, L.391, P.398, L.401, F.402
7 PLIP interactions:7 interactions with chain B- Hydrophobic interactions: B:F.305, B:Y.376, B:L.391, B:L.401, B:F.402
- Hydrogen bonds: B:S.377
- Water bridges: B:Y.376
- 1 x NWN: hydrido[hydridonickel(2+)]bis(hydrocyanato-1kappaC)(hydroxymethyl)iron(Non-covalent)
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ogata, H. et al., Hydrogens detected by subatomic resolution protein crystallography in a [NiFe] hydrogenase. Nature (2015)
- Release Date
- 2015-01-21
- Peptides
- Periplasmic [NiFe] hydrogenase small subunit: A
Periplasmic [NiFe] hydrogenase large subunit: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
SB
L
- Coordinates
- PDB Format
- Method
- X-RAY DIFFRACTION 1.06 Å
- Oligo State
- hetero-oligomer
- Ligands
- 2 x SF4: IRON/SULFUR CLUSTER(Non-covalent)
- 1 x F3S: FE3-S4 CLUSTER(Non-covalent)
- 8 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)
- 1 x NWN: hydrido[hydridonickel(2+)]bis(hydrocyanato-1kappaC)(hydroxymethyl)iron(Non-covalent)
- 1 x MG: MAGNESIUM ION(Non-covalent)
- 1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)
- Links
- RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP
- Citation
- Ogata, H. et al., Hydrogens detected by subatomic resolution protein crystallography in a [NiFe] hydrogenase. Nature (2015)
- Release Date
- 2015-01-21
- Peptides
- Periplasmic [NiFe] hydrogenase small subunit: A
Periplasmic [NiFe] hydrogenase large subunit: B - SMTL:PDB
- SMTL Chain Id:
PDB Chain Id:A
SB
L