Any feedback?
Please rate this page
(literature.php)
(0/150)

BRENDA support

Literature summary extracted from

  • Heinemann, I.U.; Diekmann, N.; Masoumi, A.; Koch, M.; Messerschmidt, A.; Jahn, M.; Jahn, D.
    Functional definition of the tobacco protoporphyrinogen IX oxidase substrate binding site (2007), Biochem. J., 402, 575-580.
    View publication on PubMedView publication on EuropePMC

Application

EC Number Application Comment Organism
1.3.3.4 medicine tobacco PPO2 represents a useful model system for the understanding of the structure–function relationship underlying detrimental human enzyme defects, Arg98, Phe392, Leu356 and Leu372 are functionally involved in substrate co-ordination within the active site Nicotiana tabacum

Cloned(Commentary)

EC Number Cloned (Comment) Organism
1.3.3.4 expressed in Escherichia coli strain BL21(DE3)RIL Nicotiana tabacum
1.3.3.4 expression in Escherichia coli BL21(DE3)RIL containing the original or mutated pET32a-PPO2 plasmids Nicotiana tabacum

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
1.3.3.4
-
 Nicotiana tabacum

Protein Variants

EC Number Protein Variants Comment Organism
1.3.3.4 F329E shows increased activity Nicotiana tabacum
1.3.3.4 F392E inferior binding of the substrate, but increased turnover rate than wild-type Nicotiana tabacum
1.3.3.4 F392H does not reveal detectable enzyme activity indicating an important role of Phe392 in substrate ring A stacking Nicotiana tabacum
1.3.3.4 F392H no detectable enzyme activity Nicotiana tabacum
1.3.3.4 L356N an only slightly inferior binding capacity compared with the wild-type and comparable catalytic PPO2 activities Nicotiana tabacum
1.3.3.4 L356N shows increased activity Nicotiana tabacum
1.3.3.4 L356V increased Km value, once the substrate is bound, catalysis is enhanced Nicotiana tabacum
1.3.3.4 L356V shows increased activity Nicotiana tabacum
1.3.3.4 L372N an only slightly inferior binding capacity compared with the wild-type and comparable catalytic PPO2 activities Nicotiana tabacum
1.3.3.4 L372N shows increased activity Nicotiana tabacum
1.3.3.4 L372V increased Km value, once the substrate is bound, catalysis is enhanced Nicotiana tabacum
1.3.3.4 L372V shows increased activity Nicotiana tabacum
1.3.3.4 N67R inferior substrate binding, acceptable catalytic efficiency Nicotiana tabacum
1.3.3.4 N67R shows increased activity Nicotiana tabacum
1.3.3.4 N67R/S374D almost wild-type level Km value Nicotiana tabacum
1.3.3.4 N67R/S374D shows increased activity Nicotiana tabacum
1.3.3.4 N67W does not reveal detectable enzyme activity Nicotiana tabacum
1.3.3.4 N67W/S374D significantly reduced enzyme activity Nicotiana tabacum
1.3.3.4 N67W/S374D shows increased activity, structural constellation mimicking the human disease variegate porphyria Nicotiana tabacum
1.3.3.4 N6W no detectable enzyme activity Nicotiana tabacum
1.3.3.4 R98A 8fold increased Km value, improved turnover Nicotiana tabacum
1.3.3.4 R98A shows increased activity Nicotiana tabacum
1.3.3.4 R98E inferior substrate binding, improved turnover Nicotiana tabacum
1.3.3.4 R98E shows increased activity Nicotiana tabacum
1.3.3.4 R98K improved turnover Nicotiana tabacum
1.3.3.4 R98K shows increased activity Nicotiana tabacum
1.3.3.4 S374D increased turnover rate Nicotiana tabacum
1.3.3.4 S374D shows increased activity Nicotiana tabacum

KM Value [mM]

EC Number KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
1.3.3.4 0.00117
-
 protoporphyrinogen-IX wild-type Nicotiana tabacum
1.3.3.4 0.00117
-
 protoporphyrinogen-IX wild type enzyme PPO2, at 20°C Nicotiana tabacum
1.3.3.4 0.0014
-
 protoporphyrinogen-IX N67R/S374D Nicotiana tabacum
1.3.3.4 0.0014
-
 protoporphyrinogen-IX mutant enzyme N67R/S374D, at 20°C Nicotiana tabacum
1.3.3.4 0.0026
-
 protoporphyrinogen-IX R98K Nicotiana tabacum
1.3.3.4 0.0026
-
 protoporphyrinogen-IX mutant enzyme R98K, at 20°C Nicotiana tabacum
1.3.3.4 0.0073
-
 protoporphyrinogen-IX L356V Nicotiana tabacum
1.3.3.4 0.0073
-
 protoporphyrinogen-IX mutant enzyme L356V, at 20°C Nicotiana tabacum
1.3.3.4 0.0083
-
 protoporphyrinogen-IX R98A Nicotiana tabacum
1.3.3.4 0.0083
-
 protoporphyrinogen-IX mutant enzyme R98A, at 20°C Nicotiana tabacum
1.3.3.4 0.0109
-
 protoporphyrinogen-IX S374D Nicotiana tabacum
1.3.3.4 0.0109
-
 protoporphyrinogen-IX mutant enzyme S374D, at 20°C Nicotiana tabacum
1.3.3.4 0.011
-
 protoporphyrinogen-IX L356N Nicotiana tabacum
1.3.3.4 0.011
-
 protoporphyrinogen-IX mutant enzyme L356N, at 20°C Nicotiana tabacum
1.3.3.4 0.0112
-
 protoporphyrinogen-IX F392E Nicotiana tabacum
1.3.3.4 0.0112
-
 protoporphyrinogen-IX mutant enzyme F392E, at 20°C Nicotiana tabacum
1.3.3.4 0.0125
-
 protoporphyrinogen-IX R98E Nicotiana tabacum
1.3.3.4 0.0125
-
 protoporphyrinogen-IX mutant enzyme R98E, at 20°C Nicotiana tabacum
1.3.3.4 0.0164
-
 protoporphyrinogen-IX L372N Nicotiana tabacum
1.3.3.4 0.0164
-
 protoporphyrinogen-IX mutant enzyme L372N, at 20°C Nicotiana tabacum
1.3.3.4 0.021
-
 protoporphyrinogen-IX N67W/S374D Nicotiana tabacum
1.3.3.4 0.021
-
 protoporphyrinogen-IX mutant enzyme N67W/S374D, at 20°C Nicotiana tabacum
1.3.3.4 0.097
-
 protoporphyrinogen-IX N67R Nicotiana tabacum
1.3.3.4 0.097
-
 protoporphyrinogen-IX mutant enzyme N67R, at 20°C Nicotiana tabacum
1.3.3.4 0.103
-
 protoporphyrinogen-IX L372V Nicotiana tabacum
1.3.3.4 0.103
-
 protoporphyrinogen-IX mutant enzyme L372V, at 20°C Nicotiana tabacum

Localization

EC Number Localization Comment Organism GeneOntology No. Textmining
1.3.3.4 mitochondrion PPO2 Nicotiana tabacum 5739
-
1.3.3.4 plastid PPO1 Nicotiana tabacum 9536
-

Organism

EC Number Organism UniProt Comment Textmining
1.3.3.4 Nicotiana tabacum
-
-
-

Purification (Commentary)

EC Number Purification (Comment) Organism
1.3.3.4 Ni-IDA resin column chromatography Nicotiana tabacum
1.3.3.4 to apparent homogeneity by Ni-IDA resin Nicotiana tabacum

Specific Activity [micromol/min/mg]

EC Number Specific Activity Minimum [µmol/min/mg] Specific Activity Maximum [µmol/min/mg] Comment Organism
1.3.3.4 4.27
-
-
 Nicotiana tabacum

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
1.3.3.4 protoporphyrinogen-IX + 3 O2
-
 Nicotiana tabacum protoporphyrin-IX + 3 H2O2
-
 ?
1.3.3.4 protoporphyrinogen-IX + 3 O2
-
 Nicotiana tabacum protoporphyrin-IX + 3 H2O2
-
 ir

Synonyms

EC Number Synonyms Comment Organism
1.3.3.4 PPO1 plastidic PPO Nicotiana tabacum
1.3.3.4 PPO2
-
 Nicotiana tabacum
1.3.3.4 PPO2 mitochondrial PPO Nicotiana tabacum
1.3.3.4 protoporphyrinogen IX oxidase
-
 Nicotiana tabacum

Turnover Number [1/s]

EC Number Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
1.3.3.4 6
-
 protoporphyrinogen-IX wild-type Nicotiana tabacum
1.3.3.4 6
-
 protoporphyrinogen-IX wild type enzyme PPO2, at 20°C Nicotiana tabacum
1.3.3.4 7
-
 protoporphyrinogen-IX L372N Nicotiana tabacum
1.3.3.4 7
-
 protoporphyrinogen-IX mutant enzyme L372N, at 20°C Nicotiana tabacum
1.3.3.4 11
-
 protoporphyrinogen-IX F392E Nicotiana tabacum
1.3.3.4 11
-
 protoporphyrinogen-IX mutant enzyme F392E, at 20°C Nicotiana tabacum
1.3.3.4 12
-
 protoporphyrinogen-IX N67W/S374D Nicotiana tabacum
1.3.3.4 12
-
 protoporphyrinogen-IX mutant enzyme N67W/S374D, at 20°C Nicotiana tabacum
1.3.3.4 34
-
 protoporphyrinogen-IX R98E Nicotiana tabacum
1.3.3.4 34
-
 protoporphyrinogen-IX mutant enzyme R98E, at 20°C Nicotiana tabacum
1.3.3.4 37
-
 protoporphyrinogen-IX R98K Nicotiana tabacum
1.3.3.4 37
-
 protoporphyrinogen-IX mutant enzyme R98K, at 20°C Nicotiana tabacum
1.3.3.4 38
-
 protoporphyrinogen-IX L356N Nicotiana tabacum
1.3.3.4 38
-
 protoporphyrinogen-IX mutant enzyme L356N, at 20°C Nicotiana tabacum
1.3.3.4 97
-
 protoporphyrinogen-IX N67R Nicotiana tabacum
1.3.3.4 97
-
 protoporphyrinogen-IX mutant enzyme N67R, at 20°C Nicotiana tabacum
1.3.3.4 111
-
 protoporphyrinogen-IX N67R/S374D Nicotiana tabacum
1.3.3.4 111
-
 protoporphyrinogen-IX mutant enzyme N67R/S374D, at 20°C Nicotiana tabacum
1.3.3.4 208
-
 protoporphyrinogen-IX mutant enzyme S374D, at 20°C Nicotiana tabacum
1.3.3.4 300
-
 protoporphyrinogen-IX L356V Nicotiana tabacum
1.3.3.4 300
-
 protoporphyrinogen-IX mutant enzyme L356V, at 20°C Nicotiana tabacum
1.3.3.4 365
-
 protoporphyrinogen-IX R98A Nicotiana tabacum
1.3.3.4 365
-
 protoporphyrinogen-IX mutant enzyme R98A, at 20°C Nicotiana tabacum
1.3.3.4 597
-
 protoporphyrinogen-IX L372V Nicotiana tabacum
1.3.3.4 597
-
 protoporphyrinogen-IX mutant enzyme L372V, at 20°C Nicotiana tabacum

Cofactor

EC Number Cofactor Comment Organism Structure
1.3.3.4 flavin dependent Nicotiana tabacum