SMTL ID : 7ce5.8 (7 other biounits)

Methanol-PQQ bound methanol dehydrogenase (MDH) from Methylococcus capsulatus (Bath)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: E.177, N.261, D.303, A.305 Ligands: MOH.2, PQQ.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.177, A:E.177, A:D.303

1 x MOH: METHANOL(Non-functional Binders)

MOH.2: 9 residues within 4Å: Chain A: C.103, C.104, E.177, W.265, D.303, W.533, L.549 Ligands: CA.1, PQQ.3 No protein-ligand interaction detected (PLIP)

1 x PQQ: PYRROLOQUINOLINE QUINONE(Non-covalent)

PQQ.3: 22 residues within 4Å: Chain A: E.55, C.103, C.104, V.107, R.109, T.159, A.174, G.175, A.176, E.177, T.241, W.243, N.261, D.303, A.305, R.330, N.393, W.469, G.532, W.533 Ligands: CA.1, MOH.2 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:W.243, A:W.533 Hydrogen bonds: A:R.109, A:G.175, A:A.176, A:E.177, A:R.330, A:R.330, A:N.393, A:W.533 Water bridges: A:T.241, A:T.241 Salt bridges: A:R.109, A:R.109 pi-Stacking: A:W.243, A:W.243

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chan, S.I. et al., Mechanism of Pyrroloquinoline Quinone-Dependent Hydride Transfer Chemistry from Spectroscopic and High-Resolution X-ray Structural Studies of the Methanol Dehydrogenase from Methylococcus capsulatus (Bath). J.Am.Chem.Soc. (2021)

Release Date

2021-06-30

Peptides

Methanol dehydrogenase protein, large subunit: A
Methanol dehydrogenase [cytochrome c] subunit 2: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
N

B
P

Methanol dehydrogenase protein, large subunit

Methanol dehydrogenase [cytochrome c] subunit 2

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