SMTL ID : 1lrw.1

Crystal structure of methanol dehydrogenase from P. denitrificans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

hetero-2-2-mer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

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

2 x PQQ: PYRROLOQUINOLINE QUINONE(Non-covalent)

PQQ.2: 19 residues within 4Å: Chain A: E.55, C.103, C.104, V.107, R.109, T.159, S.174, G.175, A.176, E.177, T.241, W.243, D.303, R.331, N.394, W.476, G.539, W.540 Ligands: CA.1 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:W.540 Hydrogen bonds: A:R.109, A:T.159, A:S.174, A:G.175, A:A.176, A:E.177, A:T.241, A:R.331, A:N.394, A:W.540 Water bridges: A:C.103 Salt bridges: A:R.109, A:R.109 pi-Stacking: A:W.243, A:W.243, A:W.243 PQQ.4: 20 residues within 4Å: Chain C: E.55, C.103, C.104, V.107, R.109, T.159, S.174, G.175, A.176, E.177, T.241, W.243, N.261, D.303, R.331, N.394, W.476, G.539, W.540 Ligands: CA.3 21 PLIP interactions: 21 interactions with chain C Hydrophobic interactions: C:W.476, C:W.540 Hydrogen bonds: C:R.109, C:S.174, C:S.174, C:G.175, C:A.176, C:R.331, C:R.331, C:N.394, C:W.540 Water bridges: C:C.103, C:E.177, C:E.177, C:T.241, C:T.241 Salt bridges: C:R.109, C:R.109 pi-Stacking: C:W.243, C:W.243, C:W.243

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xia, Z.-X. et al., X-ray structure of methanol dehydrogenase from Paracoccus denitrificans and molecular modeling of its interactions with cytochrome c-551i. J.Biol.Inorg.Chem. (2003)

Release Date

2003-08-12

Peptides

methanol dehydrogenase subunit 1: AC
methanol dehydrogenase subunit 2: BD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
C

B
B

D
D

methanol dehydrogenase subunit 1

methanol dehydrogenase subunit 2