DB code: D00446

CATH domain 3.10.180.10 : 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1
3.10.180.10 : 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 Catalytic domain
E.C. 1.13.11.2
CSA 1mpy
M-CSA 1mpy
MACiE M0034

CATH domain Related DB codes (homologues)
3.10.180.10 : 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 D00447 D00448 S00540 S00185

Uniprot Enzyme Name
UniprotKB Protein name Synonyms RefSeq Pfam
P06622 Metapyrocatechase
MPC
EC 1.13.11.2
CatO2ase
Catechol 2,3-dioxygenase
NP_542866.1 (Protein)
NC_003350.1 (DNA/RNA sequence)
PF00903 (Glyoxalase)
[Graphical View]

KEGG enzyme name
catechol 2,3-dioxygenase
2,3-pyrocatechase
catechol 2,3-oxygenase
catechol oxygenase
metapyrocatechase
pyrocatechol 2,3-dioxygenase

UniprotKB: Accession Number Entry name Activity Subunit Subcellular location Cofactor
P06622 XYLE1_PSEPU Catechol + O(2) = 2-hydroxymuconate semialdehyde. Homotetramer. Fe(2+) ion.

KEGG Pathways
Map code Pathways E.C.
MAP00362 Benzoate degradation via hydroxylation
MAP00622 Toluene and xylene degradation
MAP00627 1,4-Dichlorobenzene degradation
MAP00629 Carbazole degradation
MAP00643 Styrene degradation

Compound table
Cofactors Substrates Products Intermediates
KEGG-id C00023 C00090 C00007 C00682
E.C.
Compound Iron Catechol O2 2-Hydroxymuconate semialdehyde
Type heavy metal aromatic ring (only carbon atom) others carbohydrate,carboxyl group
ChEBI 18248
82664
18135
15379
26689
27140
67110
PubChem 23925
289
977
1mpyA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mpyB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mpyC01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mpyD01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mpyA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Bound:FE2 Unbound Unbound Unbound
1mpyB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Bound:FE2 Unbound Unbound Unbound
1mpyC02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Bound:FE2 Unbound Unbound Unbound
1mpyD02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Bound:FE2 Unbound Unbound Unbound

Reference for Active-site residues
resource references E.C.
Swiss-prot;P06622 & literature [14]

Active-site residues
PDB Catalytic residues Cofactor-binding residues Modified residues Main-chain involved in catalysis Comment
1mpyA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mpyB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mpyC01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mpyD01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mpyA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain HIS 199 HIS 153;HIS 214;GLU 265(Iron binding)
1mpyB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain HIS 199 HIS 153;HIS 214;GLU 265(Iron binding)
1mpyC02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain HIS 199 HIS 153;HIS 214;GLU 265(Iorn binding)
1mpyD02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain HIS 199 HIS 153;HIS 214;GLU 265(Iron binding)

References for Catalytic Mechanism
References Sections No. of steps in catalysis
[10]
Fig.7, p.6656-6657 4
[11]
[14]
Fig.1, p.32

References
[1]
Resource
Comments
Medline ID
PubMed ID 6245930
Journal FEBS Lett
Year 1980
Volume 112
Pages 83-5
Authors Tatsuno Y, Saeki Y, Nozaki M, Otsuka S, Maeda Y
Title Mossbauer spectra of metapyrocatechase.
Related PDB
Related UniProtKB
[2]
Resource
Comments
Medline ID
PubMed ID 6773944
Journal J Biol Chem
Year 1980
Volume 255
Pages 8465-71
Authors Saeki Y, Nozaki M, Senoh S
Title Cleavage of pyrogallol by non-heme iron-containing dioxygenases.
Related PDB
Related UniProtKB
[3]
Resource
Comments
Medline ID
PubMed ID 2997190
Journal J Biol Chem
Year 1985
Volume 260
Pages 14035-44
Authors Arciero DM, Orville AM, Lipscomb JD
Title 17O]Water and nitric oxide binding by protocatechuate 4,5-dioxygenase and catechol 2,3-dioxygenase. Evidence for binding of exogenous ligands to the active site Fe2+ of extradiol dioxygenases.
Related PDB
Related UniProtKB
[4]
Resource
Comments
Medline ID
PubMed ID 3015028
Journal Arch Biochem Biophys
Year 1986
Volume 248
Pages 130-7
Authors Pascal RA Jr, Huang DS
Title Reactions of 3-ethylcatechol and 3-(methylthio)catechol with catechol dioxygenases.
Related PDB
Related UniProtKB
[5]
Resource
Comments
Medline ID
PubMed ID 3365096
Journal Arch Microbiol
Year 1988
Volume 149
Pages 188-97
Authors Engesser KH, Cain RB, Knackmuss HJ
Title Bacterial metabolism of side chain fluorinated aromatics: cometabolism of 3-trifluoromethyl(TFM)-benzoate by Pseudomonas putida (arvilla) mt-2 and Rhodococcus rubropertinctus N657.
Related PDB
Related UniProtKB
[6]
Resource
Comments
Medline ID
PubMed ID 8075079
Journal Biochemistry
Year 1994
Volume 33
Pages 10777-84
Authors Bertini I, Briganti F, Mangani S, Nolting HF, Scozzafava A
Title X-ray absorption studies on catechol 2,3-dioxygenase from Pseudomonas putida mt2.
Related PDB
Related UniProtKB
[7]
Resource
Comments
Medline ID
PubMed ID 8163017
Journal FEBS Lett
Year 1994
Volume 343
Pages 56-60
Authors Bertini I, Briganti F, Scozzafava A
Title Aliphatic and aromatic inhibitors binding to the active site of catechol 2,3-dioxygenase from Pseudomonas putida mt-2.
Related PDB
Related UniProtKB
[8]
Resource
Comments
Medline ID
PubMed ID 8180697
Journal Microbiology
Year 1994
Volume 140
Pages 321-30
Authors Candidus S, van Pee KH, Lingens F
Title The catechol 2,3-dioxygenase gene of Rhodococcus rhodochrous CTM: nucleotide sequence, comparison with isofunctional dioxygenases and evidence for an active-site histidine.
Related PDB
Related UniProtKB
[9]
Resource
Comments
Medline ID
PubMed ID 7710322
Journal Arch Microbiol
Year 1995
Volume 163
Pages 65-9
Authors Winkler J, Eltis LD, Dwyer DF, Rohde M
Title Tetrameric structure and cellular location of catechol 2,3-dioxygenase.
Related PDB
Related UniProtKB
[10]
Resource
Comments
Medline ID
PubMed ID 7756296
Journal Biochemistry
Year 1995
Volume 34
Pages 6649-59
Authors Shu L, Chiou YM, Orville AM, Miller MA, Lipscomb JD, Que L Jr
Title X-ray absorption spectroscopic studies of the Fe(II) active site of catechol 2,3-dioxygenase. Implications for the extradiol cleavage mechanism.
Related PDB
Related UniProtKB
[11]
Resource
Comments
Medline ID
PubMed ID 9056848
Journal Biochem Soc Trans
Year 1997
Volume 25
Pages 81-5
Authors Bugg TD, Sanvoisin J, Spence EL
Title Exploring the catalytic mechanism of the extradiol catechol dioxygenases.
Related PDB
Related UniProtKB
[12]
Resource
Comments
Medline ID
PubMed ID 9276689
Journal J Biochem (Tokyo)
Year 1997
Volume 122
Pages 201-4
Authors Kita A, Kita S, Inaka K, Ishida T, Horiike K, Nozaki M, Miki K
Title Crystallization and preliminary X-ray diffraction studies of expressed Pseudomonas putida catechol 2,3-dioxygenase.
Related PDB
Related UniProtKB
[13]
Resource
Comments
Medline ID
PubMed ID 9545294
Journal J Biol Chem
Year 1998
Volume 273
Pages 9622-9
Authors Hugo N, Armengaud J, Gaillard J, Timmis KN, Jouanneau Y
Title A novel -2Fe-2S- ferredoxin from Pseudomonas putida mt2 promotes the reductive reactivation of catechol 2,3-dioxygenase.
Related PDB
Related UniProtKB
[14]
Resource
Comments X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS)
Medline ID 99148110
PubMed ID 10368270
Journal Structure Fold Des
Year 1999
Volume 7
Pages 25-34
Authors Kita A, Kita S, Fujisawa I, Inaka K, Ishida T, Horiike K, Nozaki M, Miki K
Title An archetypical extradiol-cleaving catecholic dioxygenase: the crystal structure of catechol 2,3-dioxygenase (metapyrocatechase) from Ppseudomonas putida mt-2.
Related PDB 1mpy
Related UniProtKB P06622
[15]
Resource
Comments
Medline ID
PubMed ID 11565853
Journal J Biomol Struct Dyn
Year 2001
Volume 19
Pages 75-83
Authors Dai L, Ji C, Gao D, Wang J, Jiang T, Bi A, Sheng X, Mao Y
Title Modeling and analysis of the structure of the thermostable catechol 2,3-dioxygenase from Bacillus Stearothermophilus.
Related PDB
Related UniProtKB
[16]
Resource
Comments
Medline ID
PubMed ID 12519074
Journal Biochem J
Year 2003
Volume 371
Pages 557-64
Authors Okuta A, Ohnishi K, Yagame S, Harayama S
Title Intersubunit interaction and catalytic activity of catechol 2,3-dioxygenases.
Related PDB
Related UniProtKB
[17]
Resource
Comments
Medline ID
PubMed ID 14769058
Journal J Biomol Struct Dyn
Year 2004
Volume 21
Pages 657-62
Authors Zhang JH, Zhang LL, Zhou LX
Title Thermostability of protein studied by molecular dynamics simulation.
Related PDB
Related UniProtKB

Comments

Created Updated
2004-10-28 2009-03-16