SMTL ID : 4c3o.1 (2 other biounits)

Structure and function of an oxygen tolerant NiFe hydrogenase from Salmonella

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NFU: formyl[bis(hydrocyanato-1kappaC)]ironnickel(Fe-Ni)(Non-covalent)

NFU.1: 13 residues within 4Å: Chain A: C.76, C.79, T.82, H.83, A.510, P.511, R.512, L.515, V.533, P.534, T.535, C.579, C.582 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.512, A:R.512, A:T.535, A:T.535 Metal complexes: A:C.76, A:C.79, A:C.79, A:C.579, A:C.582, A:C.582

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: R.169, R.172 Chain B: S.38 Ligand excluded by PLIP CL.3: 1 residues within 4Å: Chain A: K.214 Ligand excluded by PLIP

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain A: E.57, E.347, C.531, H.585 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.57, A:C.531, A:H.585, H2O.1

1 x F4S: FE4-S3 CLUSTER(Non-covalent)

F4S.5: 12 residues within 4Å: Chain A: R.74, H.229 Chain B: E.16, C.17, T.18, C.19, C.20, E.76, S.114, C.115, C.120, C.149 8 PLIP interactions: 8 interactions with chain B, Salt bridges: B:E.76 Metal complexes: B:C.17, B:C.19, B:C.19, B:C.20, B:C.115, B:C.120, B:C.149

1 x SF4: IRON/SULFUR CLUSTER(Non-covalent)

SF4.6: 11 residues within 4Å: Chain B: H.187, C.190, R.192, R.193, F.196, C.215, L.216, Y.217, C.221, G.223, I.243 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:H.187, B:C.190, B:C.215, B:C.221

1 x F3S: FE3-S4 CLUSTER(Non-covalent)

F3S.7: 11 residues within 4Å: Chain A: K.226 Chain B: I.186, T.226, N.228, C.230, W.235, P.242, C.249, L.250, G.251, C.252 3 PLIP interactions: 3 interactions with chain B, Metal complexes: B:C.230, B:C.249, B:C.252

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.8: 3 residues within 4Å: Chain B: D.173, R.174, K.179 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.174 Salt bridges: B:R.174, B:K.179

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bowman, L. et al., How the Structure of the Large Subunit Controls Function in an Oxygen-Tolerant [Nife]-Hydrogenase. Biochem.J. (2014)

Release Date

2014-01-29

Peptides

HYDROGENASE-1 LARGE SUBUNIT: A
HYDROGENASE-1 SMALL SUBUNIT: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

HYDROGENASE-1 LARGE SUBUNIT

HYDROGENASE-1 SMALL SUBUNIT

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