SMTL ID : 7odg.1

Crystal structure of the O2-tolerant MBH-P242C from Ralstonia eutropha in its reduced state

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 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.75, C.78, C.81, H.82, A.528, P.529, R.530, L.533, V.551, P.552, T.553, C.597, C.600 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:R.530, A:R.530, A:T.553 Metal complexes: A:C.75, A:C.78, A:C.78, A:C.597, A:C.600, A:C.600

1 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: E.56, C.549, H.603 6 PLIP interactions: 3 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.56, A:C.549, A:H.603, H2O.1, H2O.1, H2O.2

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

SF4.3: 13 residues within 4Å: Chain B: I.186, H.187, C.190, R.192, R.193, F.196, C.215, L.216, Y.217, C.221, G.223, P.224, I.243 8 PLIP interactions: 4 interactions with chain B, 4 Ligand-Ligand interactions Metal complexes: B:H.187, B:C.190, B:C.215, B:C.221, SF4.3, SF4.3, SF4.3, SF4.3 SF4.4: 11 residues within 4Å: Chain A: K.226 Chain B: T.226, N.228, C.230, W.235, C.242, C.249, I.250, G.251, C.252, S.253 8 PLIP interactions: 4 interactions with chain B, 4 Ligand-Ligand interactions Metal complexes: B:C.230, B:C.242, B:C.249, B:C.252, SF4.4, SF4.4, SF4.4, SF4.4

1 x F4S: FE4-S3 CLUSTER(Covalent)

F4S.5: 11 residues within 4Å: Chain A: R.73 Chain B: E.16, C.17, T.18, C.19, C.20, S.114, C.115, C.120, G.148, C.149 7 PLIP interactions: 7 interactions with chain B, Salt bridges: B:E.76 Metal complexes: B:C.17, B:C.19, B:C.19, B:C.115, B:C.120, B:C.149

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

CL.6: 3 residues within 4Å: Chain B: W.118, C.120, G.256 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Siebert, E. et al., Resonance Raman spectroscopic analysis of the iron-sulfur cluster redox chain of the Ralstonia eutropha membrane-bound [NiFe]-hydrogenase. J Raman Spectrosc (2021)

Release Date

2021-07-07

Peptides

Uptake hydrogenase large subunit: A
Uptake hydrogenase small subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
S

Uptake hydrogenase large subunit

Uptake hydrogenase small subunit

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