SMTL ID : 8ryh.1

Desulfovibrio desulfuricans [FeFe]-hydrogenase variant with both subunits linked by a linker peptide derived from a group A1 type [FeFe]-hydrogenase of Veillonella atypica

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.77 Å

Oligo State

monomer

Ligands

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

SF4.1: 14 residues within 4Å: Chain A: V.28, C.45, P.46, T.47, A.49, I.50, I.60, C.66, I.67, N.68, C.69, G.70, Q.71, C.72 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.45, A:C.66, A:C.69, A:C.72 SF4.2: 14 residues within 4Å: Chain A: I.30, C.35, I.36, G.37, C.38, D.39, T.40, C.41, H.58, C.76, P.77, E.78, A.80, I.81 6 PLIP interactions: 6 interactions with chain A, Salt bridges: A:E.78 pi-Cation interactions: A:H.58 Metal complexes: A:C.35, A:C.38, A:C.41, A:C.76 SF4.3: 16 residues within 4Å: Chain A: C.69, C.179, P.180, G.181, P.233, C.234, A.236, K.237, M.376, A.377, C.378, G.381, C.382, G.385, G.386 Ligands: 402.4 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.179, A:C.234, A:C.378, A:C.382

1 x 402: dicarbonyl[bis(cyanide-kappaC)]-mu-(iminodimethanethiolatato-1kappaS:2kappaS)-mu-(oxomethylidene)diiron(2+)(Non-covalent)

402.4: 21 residues within 4Å: Chain A: A.107, P.108, A.109, T.145, A.149, C.178, C.179, P.180, S.202, P.203, I.204, M.232, P.233, C.234, K.237, F.296, G.297, V.302, M.376, C.382 Ligands: SF4.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.109, A:I.204, A:K.237 Metal complexes: A:C.382

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bikbaev, K. et al., Enhancing maturation of [FeFe]-hydrogenase by interlinking the large and small subunits. To be published

Release Date

2025-02-19

Peptides

Periplasmic [Fe] hydrogenase large subunit,Periplasmic [Fe] hydrogenase small subunit: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Periplasmic [Fe] hydrogenase large subunit,Periplasmic [Fe] hydrogenase small subunit