SMTL ID : 1jmz.1 (1 other biounit)

crystal structure of a quinohemoprotein amine dehydrogenase from pseudomonas putida with inhibitor

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-1-1-mer

Ligands

1 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 1 residues within 4Å: Chain A: E.367 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.367, H2O.3

2 x HEC: HEME C(Covalent)

HEC.2: 24 residues within 4Å: Chain A: K.32, S.40, R.43, T.99, C.100, R.102, C.103, H.104, R.108, V.109, Q.112, R.114, W.119, L.122, H.126, W.130, Q.136, W.144, L.156, N.489, P.491 Chain C: P.44, A.45 Ligands: HEC.3 31 PLIP interactions: 24 interactions with chain A, 7 interactions with chain C, Hydrophobic interactions: A:T.99, A:V.109, A:V.109, A:W.119, A:L.122, A:L.122, A:W.130, A:W.130, A:W.144, A:L.156, C:P.44, C:P.44 Hydrogen bonds: A:R.114, A:N.489 Water bridges: A:R.108, A:R.108, A:Q.112, C:Y.54, C:Y.54, C:Y.54, C:Y.54, C:Y.54 Salt bridges: A:K.32, A:R.43, A:R.108 pi-Stacking: A:H.104, A:H.104, A:H.126, A:H.126 Metal complexes: A:H.104, A:H.126 HEC.3: 22 residues within 4Å: Chain A: K.11, C.12, C.15, H.16, R.26, I.27, Q.30, W.37, I.41, R.43, M.44, H.48, L.50, L.60, R.114, F.125 Chain B: L.116, N.117, D.118, H.119, Y.120 Ligands: HEC.2 22 PLIP interactions: 21 interactions with chain A, 1 interactions with chain B, Hydrophobic interactions: A:I.27, A:I.27, A:W.37, A:I.41, A:H.48, A:L.50, A:L.60, A:F.125, B:Y.120 Hydrogen bonds: A:Q.30 Water bridges: A:R.26, A:R.26 Salt bridges: A:R.26, A:K.32, A:R.43, A:R.43, A:H.48, A:R.114 pi-Stacking: A:H.16, A:H.16, A:H.16 Metal complexes: A:H.16

1 x PND: P-NITROPHENYLHYDRAZINE(Covalent)

PND.4: 12 residues within 4Å: Chain B: L.198, F.200, W.201, F.258, Y.298, T.341 Chain C: D.12, P.13, D.33, G.36, W.42, W.43 5 PLIP interactions: 1 interactions with chain C, 4 interactions with chain B Hydrogen bonds: C:D.33 Hydrophobic interactions: B:L.198, B:F.258, B:F.258, B:T.341

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Satoh, A. et al., Crystal structure of quinohemoprotein amine dehydrogenase from Pseudomonas putida. Identification of a novel quinone cofactor encaged by multiple thioether cross-bridges. J.Biol.Chem. (2002)

Release Date

2002-01-16

Peptides

Amine Dehydrogenase: A
Amine Dehydrogenase: B
Amine Dehydrogenase: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
G

Amine Dehydrogenase

Amine Dehydrogenase

Amine Dehydrogenase

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