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Literature summary extracted from

  • Piccoli, S.; Musiani, F.; Giorgetti, A.
    Dynamic characterization and substrate binding of cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase - an enzyme used in bioremediation (2014), J. Mol. Model., 20, 2531 .
    View publication on PubMed

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
1.3.1.56 crystal structure analysis of PpBphB, PDB ID 3ZV5, overview Pandoraea pnomenusa

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
1.3.1.56 cis-3-phenylcyclohexa-3,5-diene-1,2-diol + NAD+ Pandoraea pnomenusa
-
 biphenyl-2,3-diol + NADH + H+
-
 ?
1.3.1.56 cis-3-phenylcyclohexa-3,5-diene-1,2-diol + NAD+ Pandoraea pnomenusa B-356
-
 biphenyl-2,3-diol + NADH + H+
-
 ?

Organism

EC Number Organism UniProt Comment Textmining
1.3.1.56 Pandoraea pnomenusa
-
-
-
1.3.1.56 Pandoraea pnomenusa B-356
-
-
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.3.1.56 cis-3-phenylcyclohexa-3,5-diene-1,2-diol + NAD+
-
 Pandoraea pnomenusa biphenyl-2,3-diol + NADH + H+
-
 ?
1.3.1.56 cis-3-phenylcyclohexa-3,5-diene-1,2-diol + NAD+
-
 Pandoraea pnomenusa B-356 biphenyl-2,3-diol + NADH + H+
-
 ?

Subunits

EC Number Subunits Comment Organism
1.3.1.56 homodimer 2 * 29400, functional form Pandoraea pnomenusa
1.3.1.56 More three-dimensional enzyme structure analysis, crystal structure analysis of PpBphB, PDB ID 3ZV5, molecular dynamics simulations, overview Pandoraea pnomenusa

Synonyms

EC Number Synonyms Comment Organism
1.3.1.56 BphB
-
 Pandoraea pnomenusa
1.3.1.56 NAD-dependent cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase
-
 Pandoraea pnomenusa

Cofactor

EC Number Cofactor Comment Organism Structure
1.3.1.56 NAD+ dependent on Pandoraea pnomenusa

General Information

EC Number General Information Comment Organism
1.3.1.56 evolution PbBphB is a member of the short-chain dehydrogenase/reductase (SRD) family Pandoraea pnomenusa
1.3.1.56 metabolism NAD-dependent cis-2,3-dihydrobiphenyl-2,3-diol dehydrogenase (BphB) catalyzes the second step of the PCB catabolic pathway in bacteria Pandoraea pnomenusa
1.3.1.56 additional information the pocket between strand beta6 and helix alpha8 is the substrate-binding region and corresponds to a disordered region (Leu199-Ser206) in the structures of the apo and binary forms, dynamic behavior of the substrate binding loop. In the holo form, BPY stabilizes the conformation of the binding loop by interacting through the aromatic rings of reaction product 2,3-dihydroxybiphenyl with Val207 and Pro208 residues. Ile204 makes a hydrophobic interaction with the NAD+ cofactor only in the holo simulation. The lack of the latter interaction in the apo and in the binary forms explains the extended mobility of this region in the other two binding states of the protein Pandoraea pnomenusa
1.3.1.56 physiological function the enzyme is the key enzyme in the biphenyl/polychlorinated biphenyl catabolic pathway Pandoraea pnomenusa