SMTL ID : 1frf.1

CRYSTAL STRUCTURE OF THE NI-FE HYDROGENASE FROM DESULFOVIBRIO FRUCTOSOVORANS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-1-1-mer

Ligands

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

SF4.1: 12 residues within 4Å: Chain A: H.184, C.187, R.189, L.190, F.193, C.212, L.213, Y.214, C.218, G.220, P.221, V.239 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:H.184, A:C.187, A:C.212, A:C.218 SF4.3: 13 residues within 4Å: Chain A: E.16, C.17, G.19, C.20, E.75, G.112, T.113, C.114, G.146, C.147, P.148 Chain B: R.70, H.228 5 PLIP interactions: 5 interactions with chain A, Salt bridges: A:E.75 Metal complexes: A:C.17, A:C.20, A:C.114, A:C.147

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

F3S.2: 13 residues within 4Å: Chain A: T.223, N.225, C.227, F.232, W.237, P.238, C.245, L.246, G.247, C.248, S.249 Chain B: K.225, Q.230 3 PLIP interactions: 3 interactions with chain A, Metal complexes: A:C.227, A:C.245, A:C.248

1 x FE: FE (III) ION(Non-covalent)

FE.4: 4 residues within 4Å: Chain B: C.75, R.476, C.546 Ligands: NI.5 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:C.75, B:C.546, H2O.4, H2O.5

1 x NI: NICKEL (II) ION(Non-covalent)

NI.5: 5 residues within 4Å: Chain B: C.72, C.75, C.543, C.546 Ligands: FE.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.72, B:C.75, B:C.543, B:C.546

1 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 6 residues within 4Å: Chain B: E.53, E.334, K.372, Q.494, L.495, H.549 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.53, B:L.495, B:H.549, H2O.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rousset, M. et al., 3Fe-4S] to [4Fe-4S] cluster conversion in Desulfovibrio fructosovorans [NiFe] hydrogenase by site-directed mutagenesis. Proc.Natl.Acad.Sci.USA (1998)

Release Date

1998-07-29

Peptides

[NI-FE] HYDROGENASE: A
[NI-FE] HYDROGENASE: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
S

B
L

[NI-FE] HYDROGENASE

[NI-FE] HYDROGENASE