SMTL ID : 4wcx.2 (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: 11 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 Ligands: SAM.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, SAM.3 SF4.2: 11 residues within 4Å: Chain A: R.143, C.394, T.395, A.396, C.397, R.402, F.407, F.410, C.420, N.423 Ligands: H2S.4 3 PLIP interactions: 3 interactions with chain A, Metal complexes: A:C.394, A:C.397, A:C.420

1 x SAM: S-ADENOSYLMETHIONINE(Non-covalent)

SAM.3: 26 residues within 4Å: Chain A: Y.110, C.111, G.112, Y.113, E.147, A.148, G.149, E.150, N.183, I.184, A.185, L.205, F.206, E.208, K.224, H.230, L.250, P.284, R.285, L.286, R.287, A.289, T.326, Y.355, H.356 Ligands: SF4.1 15 PLIP interactions: 15 interactions with chain A Hydrogen bonds: A:E.150, A:E.208, A:E.208, A:R.287, A:R.287 Water bridges: A:A.148, A:N.183, A:A.185, A:A.186, A:K.224, A:K.224, A:A.289 Salt bridges: A:K.224 pi-Stacking: A:H.356 pi-Cation interactions: A:Y.355

1 x H2S: HYDROSULFURIC ACID(Non-covalent)

H2S.4: 2 residues within 4Å: Chain A: V.93 Ligands: SF4.2 No protein-ligand interaction detected (PLIP)

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

NA.5: 2 residues within 4Å: Chain A: Y.254, Y.299 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.254 Water bridges: A:Y.254 NA.6: 2 residues within 4Å: Chain A: E.33, K.36 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.36

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
C

Biotin and thiamin synthesis associated

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