SMTL ID : 3k30.1

Histamine dehydrogenase from Nocardiodes simplex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

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

SF4.1: 14 residues within 4Å: Chain A: R.325, I.328, A.329, C.348, I.349, G.350, C.351, N.352, I.353, C.354, R.365, C.366, T.367, Q.368 4 PLIP interactions: 4 interactions with chain A, Metal complexes: A:C.348, A:C.351, A:C.354, A:C.366 SF4.4: 14 residues within 4Å: Chain B: R.325, I.328, A.329, C.348, I.349, G.350, C.351, N.352, I.353, C.354, R.365, C.366, T.367, Q.368 4 PLIP interactions: 4 interactions with chain B, Metal complexes: B:C.348, B:C.351, B:C.354, B:C.366

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)(Covalent)

FMN.2: 22 residues within 4Å: Chain A: V.32, P.33, H.34, C.35, E.64, Q.65, E.108, Y.176, H.179, R.230, W.267, D.270, S.271, V.300, G.301, R.302, A.323, A.324, R.325, P.326, C.354, V.355 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:W.267, A:R.325 Hydrogen bonds: A:P.33, A:C.35, A:Q.65, A:E.108, A:Y.176, A:R.230, A:R.230, A:R.302, A:A.324, A:R.325 Salt bridges: A:R.325 FMN.5: 21 residues within 4Å: Chain B: V.32, P.33, H.34, C.35, E.64, Q.65, E.108, Y.176, H.179, R.230, W.267, D.270, S.271, V.300, G.301, R.302, A.323, A.324, R.325, P.326, V.355 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:H.34, B:W.267, B:R.325, B:V.355 Hydrogen bonds: B:P.33, B:C.35, B:Q.65, B:E.108, B:R.230, B:R.230, B:R.302, B:A.324, B:R.325 Salt bridges: B:R.325

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.3: 21 residues within 4Å: Chain A: V.397, G.398, A.399, G.400, P.401, S.402, A.420, E.421, A.422, G.428, R.429, S.465, P.466, M.467, A.483, T.484, G.485, R.625, G.648, D.649, A.659 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:A.399, A:G.400, A:S.402, A:S.402, A:A.422, A:G.423, A:G.428, A:R.429, A:M.467, A:M.467, A:R.625, A:D.649 ADP.6: 19 residues within 4Å: Chain B: V.397, G.398, G.400, P.401, S.402, E.421, A.422, G.428, R.429, S.465, P.466, M.467, A.483, T.484, G.485, R.625, G.648, D.649, A.659 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:S.402, B:S.402, B:A.422, B:R.429, B:M.467, B:M.467, B:R.625, B:D.649, B:D.649

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reed, T. et al., Crystal structure of histamine dehydrogenase from Nocardioides simplex. J.Biol.Chem. (2010)

Release Date

2010-05-26

Peptides

Histamine dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Histamine dehydrogenase