BRENDA - Enzyme Database show
show all sequences of 1.3.98.3

Role of HemF and HemN in the heme biosynthesis of Vibrio vulnificus under S-adenosylmethionine-limiting conditions

Kim, E.J.; Oh, E.K.; Lee, J.K.; Mol. Microbiol. 96, 497-512 (2015)

Data extracted from this reference:

Cloned(Commentary)
Commentary
Organism
expressed in Escherichia coli BL21 cells
Vibrio vulnificus
Engineering
Amino acid exchange
Commentary
Organism
Y74F
the apparent binding affinity of the mutant enzyme for the cofactor S-adenosyl-L-methionine is higher than that of the wild type enzyme
Vibrio vulnificus
KM Value [mM]
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.0052
-
Coproporphyrinogen III
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
0.0067
-
Coproporphyrinogen III
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
0.15
-
S-adenosyl-L-methionine
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
0.42
-
S-adenosyl-L-methionine
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
Molecular Weight [Da]
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
55000
-
-
Vibrio vulnificus
Natural Substrates/ Products (Substrates)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
coproporphyrinogen III + S-adenosyl-L-methionine
Vibrio vulnificus
-
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
?
coproporphyrinogen III + S-adenosyl-L-methionine
Vibrio vulnificus ATCC 29307
-
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
?
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Vibrio vulnificus
-
-
-
Vibrio vulnificus ATCC 29307
-
-
-
Purification (Commentary)
Commentary
Organism
Strep-Tactin-Sepharose column chromatography
Vibrio vulnificus
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
coproporphyrinogen III + S-adenosyl-L-methionine
-
739104
Vibrio vulnificus
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
coproporphyrinogen III + S-adenosyl-L-methionine
-
739104
Vibrio vulnificus ATCC 29307
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
Subunits
Subunits
Commentary
Organism
?
x * 55000, Strep-tagged enzyme, SDS-PAGE
Vibrio vulnificus
Turnover Number [1/s]
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
360
-
Coproporphyrinogen III
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
900
-
Coproporphyrinogen III
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
Cofactor
Cofactor
Commentary
Organism
Structure
[4Fe-4S]-center
-
Vibrio vulnificus
Cloned(Commentary) (protein specific)
Commentary
Organism
expressed in Escherichia coli BL21 cells
Vibrio vulnificus
Cofactor (protein specific)
Cofactor
Commentary
Organism
Structure
[4Fe-4S]-center
-
Vibrio vulnificus
Engineering (protein specific)
Amino acid exchange
Commentary
Organism
Y74F
the apparent binding affinity of the mutant enzyme for the cofactor S-adenosyl-L-methionine is higher than that of the wild type enzyme
Vibrio vulnificus
KM Value [mM] (protein specific)
KM Value [mM]
KM Value Maximum [mM]
Substrate
Commentary
Organism
Structure
0.0052
-
Coproporphyrinogen III
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
0.0067
-
Coproporphyrinogen III
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
0.15
-
S-adenosyl-L-methionine
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
0.42
-
S-adenosyl-L-methionine
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
Molecular Weight [Da] (protein specific)
Molecular Weight [Da]
Molecular Weight Maximum [Da]
Commentary
Organism
55000
-
-
Vibrio vulnificus
Natural Substrates/ Products (Substrates) (protein specific)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
coproporphyrinogen III + S-adenosyl-L-methionine
Vibrio vulnificus
-
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
?
coproporphyrinogen III + S-adenosyl-L-methionine
Vibrio vulnificus ATCC 29307
-
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
?
Purification (Commentary) (protein specific)
Commentary
Organism
Strep-Tactin-Sepharose column chromatography
Vibrio vulnificus
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
coproporphyrinogen III + S-adenosyl-L-methionine
-
739104
Vibrio vulnificus
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
coproporphyrinogen III + S-adenosyl-L-methionine
-
739104
Vibrio vulnificus ATCC 29307
protoporphyrinogen IX + CO2 + L-methionine + 5'-deoxyadenosine
-
-
-
?
Subunits (protein specific)
Subunits
Commentary
Organism
?
x * 55000, Strep-tagged enzyme, SDS-PAGE
Vibrio vulnificus
Turnover Number [1/s] (protein specific)
Turnover Number Minimum [1/s]
Turnover Number Maximum [1/s]
Substrate
Commentary
Organism
Structure
360
-
Coproporphyrinogen III
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
900
-
Coproporphyrinogen III
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
KCat/KM [mM/s]
kcat/KM Value [1/mMs-1]
kcat/KM Value Maximum [1/mMs-1]
Substrate
Commentary
Organism
Structure
54000
-
Coproporphyrinogen III
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
175000
-
Coproporphyrinogen III
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
KCat/KM [mM/s] (protein specific)
KCat/KM Value [1/mMs-1]
KCat/KM Value Maximum [1/mMs-1]
Substrate
Commentary
Organism
Structure
54000
-
Coproporphyrinogen III
mutant enzyme Y74F, at pH 8.0 and 30°C
Vibrio vulnificus
175000
-
Coproporphyrinogen III
wild type enzyme, at pH 8.0 and 30°C
Vibrio vulnificus
Other publictions for EC 1.3.98.3
No.
1st author
Pub Med
title
organims
journal
volume
pages
year
Activating Compound
Application
Cloned(Commentary)
Crystallization (Commentary)
Engineering
General Stability
Inhibitors
KM Value [mM]
Localization
Metals/Ions
Molecular Weight [Da]
Natural Substrates/ Products (Substrates)
Organic Solvent Stability
Organism
Oxidation Stability
Posttranslational Modification
Purification (Commentary)
Reaction
Renatured (Commentary)
Source Tissue
Specific Activity [micromol/min/mg]
Storage Stability
Substrates and Products (Substrate)
Subunits
Temperature Optimum [°C]
Temperature Range [°C]
Temperature Stability [°C]
Turnover Number [1/s]
pH Optimum
pH Range
pH Stability
Cofactor
Ki Value [mM]
pI Value
IC50 Value
Activating Compound (protein specific)
Application (protein specific)
Cloned(Commentary) (protein specific)
Cofactor (protein specific)
Crystallization (Commentary) (protein specific)
Engineering (protein specific)
General Stability (protein specific)
IC50 Value (protein specific)
Inhibitors (protein specific)
Ki Value [mM] (protein specific)
KM Value [mM] (protein specific)
Localization (protein specific)
Metals/Ions (protein specific)
Molecular Weight [Da] (protein specific)
Natural Substrates/ Products (Substrates) (protein specific)
Organic Solvent Stability (protein specific)
Oxidation Stability (protein specific)
Posttranslational Modification (protein specific)
Purification (Commentary) (protein specific)
Renatured (Commentary) (protein specific)
Source Tissue (protein specific)
Specific Activity [micromol/min/mg] (protein specific)
Storage Stability (protein specific)
Substrates and Products (Substrate) (protein specific)
Subunits (protein specific)
Temperature Optimum [°C] (protein specific)
Temperature Range [°C] (protein specific)
Temperature Stability [°C] (protein specific)
Turnover Number [1/s] (protein specific)
pH Optimum (protein specific)
pH Range (protein specific)
pH Stability (protein specific)
pI Value (protein specific)
Expression
General Information
General Information (protein specific)
Expression (protein specific)
KCat/KM [mM/s]
KCat/KM [mM/s] (protein specific)
746121
Pratibha
Gametophyte development needs ...
Arabidopsis thaliana
Plant Physiol.
174
258-275
2017
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7
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7
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3
3
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-
739104
Kim
Role of HemF and HemN in the h ...
Vibrio vulnificus, Vibrio vulnificus ATCC 29307
Mol. Microbiol.
96
497-512
2015
-
-
1
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1
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4
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1
2
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2
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1
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1
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2
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1
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1
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4
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1
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1
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2
1
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2
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2
2
726009
Azzouzi
Coproporphyrin III excretion i ...
Rubrivivax gelatinosus
Mol. Microbiol.
88
339-351
2013
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-
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2
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1
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1
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4
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1
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4
4
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745799
Azzouzi
Coproporphyrin III excretion ...
Rubrivivax gelatinosus
Mol. Microbiol.
88
339-351
2013
-
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1
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1
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4
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1
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1
2
2
1
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-
724235
Abicht
Lactococcus lactis HemW (HemN) ...
Lactococcus lactis
Biochem. J.
442
335-343
2012
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3
3
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711084
Shaveta
Structural characterization re ...
Homo sapiens
Biochem. Biophys. Res. Commun.
391
1390-1395
2010
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711348
Rand
The oxygen-independent copropo ...
Escherichia coli
Biol. Chem.
391
55-63
2010
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6
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6
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1
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1
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1
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712016
Duschene
The antiviral protein viperin ...
Homo sapiens
FEBS Lett.
584
1263-1267
2010
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1
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2
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713258
Goto
Functional differentiation of ...
Synechocystis sp.
Plant Cell Physiol.
51
650-663
2010
2
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1
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1
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685280
Yokoyama
Mechanistic study on the react ...
Bacillus circulans
Biochemistry
47
8950-8960
2008
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686237
Frey
The radical SAM superfamily ...
Homo sapiens
Crit. Rev. Biochem. Mol. Biol.
43
63-88
2008
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687282
Yokoyama
Characterization and mechanist ...
Bacillus circulans
J. Am. Chem. Soc.
129
15147-15155
2007
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5
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674567
Layer
The substrate radical of Esche ...
Escherichia coli
J. Biol. Chem.
281
15727-15734
2006
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1
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672473
Layer
Structural and functional comp ...
Bacillus subtilis, Cupriavidus necator, Escherichia coli, Rhodobacter sphaeroides, Salmonella enterica subsp. enterica serovar Typhimurium
Biol. Chem.
386
971-980
2005
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674462
Layer
Radical S-adenosylmethionine e ...
Escherichia coli
J. Biol. Chem.
280
29038-29046
2005
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1
8
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658501
Layer
Structure and function of radi ...
Escherichia coli
Curr. Opin. Chem. Biol.
8
468-476
2004
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655340
Layer
Crystal structure of coproporp ...
Escherichia coli
EMBO J.
22
6214-6224
2003
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1
1
1
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656073
Layer
Oxygen-independent coproporphy ...
Escherichia coli
J. Biol. Chem.
277
34136-34142
2002
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8
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2
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1
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4
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