SMTL ID : 4wcx.1 (1 other biounit)

Crystal structure of HydG: A maturase of the [FeFe]-hydrogenase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

monomer

Ligands

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

SF4.1: 12 residues within 4Å: Chain A: C.104, N.106, C.108, Y.110, C.111, Y.113, R.114, G.149, E.150, K.224, Q.368 Ligands: MET.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Salt bridges: A:E.208 Metal complexes: A:C.104, A:C.108, A:C.111, MET.3 SF4.2: 13 residues within 4Å: Chain A: V.93, R.143, C.394, A.396, C.397, R.402, F.407, F.410, F.419, C.420, N.423 Ligands: ALA.5, H2S.6 3 PLIP interactions: 3 interactions with chain A, Metal complexes: A:C.394, A:C.397, A:C.420

1 x MET: METHIONINE(Non-covalent)

MET.3: 10 residues within 4Å: Chain A: Y.99, Y.113, E.147, A.148, G.149, N.183, I.184, A.185, Q.368 Ligands: SF4.1 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:N.183, A:Q.368 Water bridges: A:N.183, A:A.185, A:A.185, A:K.224, A:K.224 Salt bridges: A:K.224

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

FE.4: 4 residues within 4Å: Chain A: R.143, H.279 Ligands: ALA.5, H2S.6 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:H.279, H2O.13, H2O.13

1 x ALA: ALANINE(Non-covalent)

ALA.5: 11 residues within 4Å: Chain A: Y.88, V.93, H.279, T.280, G.321, S.342, Q.343, F.407 Ligands: SF4.2, FE.4, H2S.6 7 PLIP interactions: 6 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:H.279, A:S.342, A:Q.343 Water bridges: A:R.143, A:H.279, A.5 Salt bridges: A:H.279

1 x H2S: HYDROSULFURIC ACID(Non-covalent)

H2S.6: 6 residues within 4Å: Chain A: V.93, R.143, H.279 Ligands: SF4.2, FE.4, ALA.5 No protein-ligand interaction detected (PLIP)

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 1 residues within 4Å: Chain A: E.357 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.357

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dinis, P. et al., X-ray crystallographic and EPR spectroscopic analysis of HydG, a maturase in [FeFe]-hydrogenase H-cluster assembly. Proc.Natl.Acad.Sci.USA (2015)

Release Date

2015-02-04

Peptides

Biotin and thiamin synthesis associated: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Biotin and thiamin synthesis associated

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