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Information on EC 2.3.1.258 - N-terminal methionine Nalpha-acetyltransferase NatE and Organism(s) Homo sapiens and UniProt Accession P41227

for references in articles please use BRENDA:EC2.3.1.258
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IUBMB Comments
N-terminal-acetylases (NATs) catalyse the covalent attachment of an acetyl moiety from acetyl-CoA to the free alpha-amino group at the N-terminus of a protein. This irreversible modification neutralizes the positive charge at the N-terminus, makes the N-terminal residue larger and more hydrophobic, and prevents its removal by hydrolysis. It may also play a role in membrane targeting and gene silencing. NatE is found in all eukaryotic organisms and plays an important role in chromosome resolution and segregation. It specifically targets N-terminal L-methionine residues attached to Lys, Val, Ala, Tyr, Phe, Leu, Ser, and Thr. There is some substrate overlap with EC 2.3.1.256, N-terminal methionine Nalpha-acetyltransferase NatC. In addition, the acetylation of Met followed by small residues such as Ser, Thr, Ala, or Val suggests a kinetic competition between NatE and EC 3.4.11.18, methionyl aminopeptidase. The enzyme also has the activity of EC 2.3.1.48, histone acetyltransferase, and autoacetylates several of its own lysine residues.
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Homo sapiens
UNIPROT: P41227
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The taxonomic range for the selected organisms is: Homo sapiens
The expected taxonomic range for this enzyme is: Bacteria, Eukaryota, Archaea
Synonyms
naa50, hnata, hnaa50, naa50/san, scnaa50, nata/naa50 complex, n-terminal acetyltransferase e, more
SYNONYM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
hNaa50
Q9GZZ1; P41227; Q9BXJ9
-
hNatA
Q9GZZ1; P41227; Q9BXJ9
-
N-terminal acetyltransferase E
Q9GZZ1; P41227; Q9BXJ9
-
Naa50
Naa50p
Naa50p (NAT5/SAN) N-terminal acetyltransferase complex
-
-
NatA/Naa50 complex
Q9GZZ1; P41227; Q9BXJ9
-
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
acetyl-CoA + an N-terminal-L-methionyl-L-leucyl-[protein] = an N-terminal-Nalpha-acetyl-L-methionyl-L-leucyl-[protein] + CoA
show the reaction diagram
hNaa50p utilizes an ordered bi bi reaction of the Theorell-Chance type, substarte binding study and dynamics using NMR spectroscopy. Acetyl-CoA induces a conformational change that is required for the peptide to bind to the active site. Addition of peptide in the absence of acetyl-CoA does not alter the structure of the protein
PATHWAY SOURCE
PATHWAYS
-
-
SYSTEMATIC NAME
IUBMB Comments
acetyl-CoA:N-terminal-Met-Ala/Ser/Val/Thr/Lys/Leu/Phe/Tyr-[protein] Met-Nalpha-acetyltransferase
N-terminal-acetylases (NATs) catalyse the covalent attachment of an acetyl moiety from acetyl-CoA to the free alpha-amino group at the N-terminus of a protein. This irreversible modification neutralizes the positive charge at the N-terminus, makes the N-terminal residue larger and more hydrophobic, and prevents its removal by hydrolysis. It may also play a role in membrane targeting and gene silencing. NatE is found in all eukaryotic organisms and plays an important role in chromosome resolution and segregation. It specifically targets N-terminal L-methionine residues attached to Lys, Val, Ala, Tyr, Phe, Leu, Ser, and Thr. There is some substrate overlap with EC 2.3.1.256, N-terminal methionine Nalpha-acetyltransferase NatC. In addition, the acetylation of Met followed by small residues such as Ser, Thr, Ala, or Val suggests a kinetic competition between NatE and EC 3.4.11.18, methionyl aminopeptidase. The enzyme also has the activity of EC 2.3.1.48, histone acetyltransferase, and autoacetylates several of its own lysine residues.
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
acetyl-CoA + an N-terminal-L-methionyl-L-methionyl-[protein]
an N-terminal-Nalpha-acetyl-L-methionyl-L-methionyl-[protein] + CoA
show the reaction diagram
-
best substrate
-
-
?
acetyl-CoA + MAAA
Nalpha-acetyl-MAAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MDAA
Nalpha-acetyl-MDAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MDELFRRR
Nalpha-acetyl-MDELFRRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MEAA
Nalpha-acetyl-MEAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MFAA
Nalpha-acetyl-MFAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MFGPERRR
Nalpha-acetyl-MFGPERRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MGAA
Nalpha-acetyl-MGAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MHAA
Nalpha-acetyl-MHAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MIAA
Nalpha-acetyl-MIAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MIGPERRR
Nalpha-acetyl-MIGPERRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MKAA
Nalpha-acetyl-MKAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MKEEVRRR
Nalpha-acetyl-MKEEVRRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MLAA
Nalpha-acetyl-MLAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MLALIRRR
Nalpha-acetyl-MLALIRRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MLDPERRR
Nalpha-acetyl-MLDPERRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MLGPEGGRWG
CoA + Ac-MLGPEGGRWG
show the reaction diagram
-
-
-
?
acetyl-CoA + MLGPEGGRWGRPVGRRRRP
acetyl-CoA + Nalpha-acetyl-MLGPEGGRWGRPVGRRRRP
show the reaction diagram
-
-
-
?
acetyl-CoA + MLGPEGGRWGRPVGRRRRPVRVYP
?
show the reaction diagram
optimal in vitro substrate
-
-
?
acetyl-CoA + MLGPERRR
Nalpha-acetyl-MLGPERRR + CoA
show the reaction diagram
best substrate
-
-
?
acetyl-CoA + MLGTERRR
Nalpha-acetyl-MLGTERRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MLGTGRRR
Nalpha-acetyl-MLGTGRRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MLLPERRR
Nalpha-acetyl-MLLPERRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MLRPERRR
Nalpha-acetyl-MLRPERRR + CoA
show the reaction diagram
-
-
-
?
acetyl-CoA + MMAA
Nalpha-acetyl-MMAA + CoA
show the reaction diagram
-
substrate with highest catalytic efficiency
-
-
?
acetyl-CoA + MNAA
Nalpha-acetyl-MNAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MQAA
Nalpha-acetyl-MQAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MRAA
Nalpha-acetyl-MRAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MSAA
Nalpha-acetyl-MSAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MTAA
Nalpha-acetyl-MMAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MVAA
Nalpha-acetyl-MVAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MWAA
Nalpha-acetyl-MWAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + MYAA
Nalpha-acetyl-MYAA + CoA
show the reaction diagram
-
-
-
-
?
acetyl-CoA + N-terminal-L-methionyl-L-leucyl-glycyl-L-proline
N-terminal-Nalpha-acetyl-L-methionyl-L-leucyl-glycyl-L-proline + CoA
show the reaction diagram
Q9GZZ1; P41227; Q9BXJ9
-
-
-
ir
acetyl-CoA + peptide
CoA + Nalpha-acetylpeptide
show the reaction diagram
additional information
?
-
NATURAL SUBSTRATE
NATURAL PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
acetyl-CoA + an N-terminal-L-methionyl-L-methionyl-[protein]
an N-terminal-Nalpha-acetyl-L-methionyl-L-methionyl-[protein] + CoA
show the reaction diagram
-
best substrate
-
-
?
acetyl-CoA + MLGPEGGRWG
CoA + Ac-MLGPEGGRWG
show the reaction diagram
-
-
-
?
acetyl-CoA + peptide
CoA + Nalpha-acetylpeptide
show the reaction diagram
COFACTOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
acetyl-CoA
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
desulfo-CoA
HYPK
Q9GZZ1; P41227; Q9BXJ9
UniProt ID Q9NX55, a protein with intrinsic NAA10 catalytic subunit inhibitory activity. HYPK and hNAA50 can bind to hNatA simultaneously to form a tetrameric hNatE/HYPK complex. hNatE displays an about 8.6fold decrease of Km, and an about 1.1fold decrease of kcat, with an overall 7.7fold increase of catalytic efficiency, compared to hNAA50. In the presence HYPK, hNatE displays an about 1.3fold decrease in Km, and an about 3.8fold decrease in kcat, with an overall 2.9fold decrease in catalytic efficiency compared to hNatE alone. The hNatE/HYPK structure reveals a negative cooperative mechanism. Over the HYPK and hNatA interaction interface within the tetrameric complex, polar interactions between HYPK-Glu74 and hNAA15-Tyr158, between the backbone carbonyl of HYPK-Thr100 and hNAA15-Lys687, between the backbone carbonyl of HYPK-Asn129 and hNAA15-Arg697, and between HYPK-Asn129 and hNAA15-Lys696 are observed
-
additional information
-
ACTIVATING COMPOUND
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
additional information
-
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.005 - 0.0069
acetyl-CoA
3.734
MFGPERRR
at pH 8.5 and 37°C
0.185
MIGPERRR
at pH 8.5 and 37°C
0.19
MLALIRRR
at pH 8.5 and 37°C
0.091
MLDPERRR
at pH 8.5 and 37°C
0.079
MLGPERRR
at pH 8.5 and 37°C
0.416
MLGTERRR
at pH 8.5 and 37°C
0.32
MLGTGRRR
at pH 8.5 and 37°C
0.478
MLLPERRR
at pH 8.5 and 37°C
0.46
MLRPERRR
at pH 8.5 and 37°C
0.0962 - 0.8315
N-terminal-L-methionyl-L-leucyl-glycyl-L-proline
additional information
additional information
-
TURNOVER NUMBER [1/s]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.18
MIGPERRR
at pH 8.5 and 37°C
0.11
MLALIRRR
at pH 8.5 and 37°C
0.12
MLDPERRR
at pH 8.5 and 37°C
0.12
MLGPERRR
at pH 8.5 and 37°C
0.09
MLGTERRR
at pH 8.5 and 37°C
0.04
MLGTGRRR
at pH 8.5 and 37°C
0.0515 - 0.0575
N-terminal-L-methionyl-L-leucyl-glycyl-L-proline
kcat/KM VALUE [1/mMs-1]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.069 - 0.535
N-terminal-L-methionyl-L-leucyl-glycyl-L-proline
Ki VALUE [mM]
INHIBITOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.00227 - 0.00277
CoA
0.067
desulfo-CoA
pH OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
7.4 - 8
assay at
8.5
Q9GZZ1; P41227; Q9BXJ9
assay at
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
37
Q9GZZ1; P41227; Q9BXJ9
assay at
LOCALIZATION
ORGANISM
UNIPROT
COMMENTARY hide
GeneOntology No.
LITERATURE
SOURCE
Q9GZZ1; P41227; Q9BXJ9
near to
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
evolution
malfunction
metabolism
Q9GZZ1; P41227; Q9BXJ9
the enzyme is involved in the co-translational N-terminal protein modification process, overview
physiological function
additional information
MOLECULAR WEIGHT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
19000
x * 19000, SDS-PAGE
40000
-
-
SUBUNIT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
additional information
Q9GZZ1; P41227; Q9BXJ9
the NatE enzyme complex is composed of the subunits Naa50, Naa10, and Naa15
CRYSTALLIZATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
enzyme bound to a native substrate peptide fragment (MLGPEGGRWG) and CoA, hanging drop vapor diffusion method, using 16% (w/v) PEG 8000, 20% (v/v) glycerol, and 40 mM potassium phosphate (monobasic, pH 5.0)
hanging drop vapor diffusion method, using 20% (w/v) PEG 3350 and 0.2 M sodium formate
-
Naa50p bound to a native substrate peptide fragment and CoA, hanging drop vapor diffusion method, mixing of 12 mg/ml protein in 25 mM HEPES, pH 7.5, 100 mM NaCl, and 10mM dithiothreitol, with peptide MLGPEGGRWG solution, and crystallization solution, containing 16% PEG 8000, 20% glycerol, and 40 mM potassium phosphate, pH 5.0, in a 1:3:3 molar ratio, 20°C, 1-3 days, X-ray diffraction structure determination and analysis at 2.75 A resolution
purified hNatE and hNatE in complex with inhibitor HYPK, X-ray diffraction structure determination and analysis at 4.5-5.0 A resolution
Q9GZZ1; P41227; Q9BXJ9
PROTEIN VARIANTS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
H112A
H112F
I142A
L814P
Q9GZZ1; P41227; Q9BXJ9
site-directed mutagenesis, the hNAA15 mutant is defective for HYPK inhibition and reduces hNatA thermostability, hNAA10 binding is not affected
T406Y
Q9GZZ1; P41227; Q9BXJ9
site-directed mutagenesis, the hNAA15 mutant can disassociate hNAA50 from hNatA in vitro, hNAA10 binding is not affected
Y124F
the mutant shows decreased activity compared to the wild type enzyme
Y139A
additional information
PURIFICATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
HiTrap SP column chromatography, and Superdex 75 gel filtration
nickel affinity column chromatography
-
recombinant GST-tagged full-length Naa50p from Escherichia coli strain BL21(DE3) by glutathione affinity chromatography and cleavage of the GST-tag by TEV protease, followed by ion exchange chromatography and gel filtration
recombinant GST-tagged hNaa50 and hNatA fromSf9 insect cells by affinity chromatography and gel filtration
Q9GZZ1; P41227; Q9BXJ9
recombinant hNaa15 mutants, hNaa50, and hNatA by affinity chromatography and gel filtration
Q9GZZ1; P41227; Q9BXJ9
CLONED (Commentary)
ORGANISM
UNIPROT
LITERATURE
expressed in Escherichia coli
expressed in Escherichia coli BL21(DE3) cells
expression in Saccharomyces cerevisiae lacking endogenous Naa50
-
expression of GST-tagged full-length Naa50p with a TEV protease-cleavable site in Escherichia coli strain BL21(DE3)
recombinant expression of hNaa15 mutants in HeLa cells, recombinant expression of N-terminally His-tagged NatA in Spodoptera frugiperda Sf9 cells, recombinant expression of His-tagged hNaa50 in Escherichia coli strain Rosetta (DE3)pLysS and strain BL21(DE3), coexpression of tagged HYPK
Q9GZZ1; P41227; Q9BXJ9
recombinant overexpression of GST-tagged hNaa50 and hNatA in Spodoptera frugiperda Sf9 cells using the baculovirus transfection system
Q9GZZ1; P41227; Q9BXJ9
APPLICATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
medicine
Naa50p is a therapeutic anti-cancer target, the structure of the ternary Naa50p complex also provides a molecular scaffold for the design of NAT-specific small molecule inhibitors with possible therapeutic applications
REF.
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Arnesen, T.; Anderson, D.; Torsvik, J.; Halseth, H.B.; Varhaug, J.E.; Lillehaug, J.R.
Cloning and characterization of hNAT5/hSAN: an evolutionarily conserved component of the NatA protein N-alpha-acetyltransferase complex
Gene
371
291-295
2006
Homo sapiens (Q9GZZ1)
Manually annotated by BRENDA team
Liszczak, G.; Arnesen, T.; Marmorsteins, R.
Structure of a ternary Naa50p (NAT5/SAN) N-terminal acetyltransferase complex reveals the molecular basis for substrate-specific acetylation
J. Biol. Chem.
286
37002-37010
2011
Homo sapiens, Homo sapiens (Q9GZZ1)
Manually annotated by BRENDA team
Evjenth, R.H.; Brenner, A.K.; Thompson, P.R.; Arnesen, T.; Fr?ystein, N.A.; Lillehaug, J.R.
Human protein N-terminal acetyltransferase hNaa50p (hNAT5/hSAN) follows ordered sequential catalytic mechanism: combined kinetic and NMR study
J. Biol. Chem.
287
10081-10088
2012
Homo sapiens, Homo sapiens (Q9GZZ1)
Manually annotated by BRENDA team
Van Damme, P.; Hole, K.; Gevaert, K.; Arnesen, T.
N-terminal acetylome analysis reveals the specificity of Naa50 (Nat5) and suggests a kinetic competition between N-terminal acetyltransferases and methionine aminopeptidases
Proteomics
15
2436-2446
2015
Homo sapiens, Saccharomyces cerevisiae
Manually annotated by BRENDA team
Evjenth, R.; Hole, K.; Karlsen, O.; Ziegler, M.; Amesen, T.; Lillehaug, J.
Human Naa50p (Nat5/San) displays both protein Nalpha- and Nepsilon-acetyltransferase activity
J. Biol. Chem.
284
31122-31129
2009
Homo sapiens (Q9GZZ1)
Manually annotated by BRENDA team
Rong, Z.; Ouyang, Z.; Magin, R.S.; Marmorstein, R.; Yu, H.
Opposing functions of the N-terminal acetyltransferases Naa50 and NatA in sister-chromatid cohesion
J. Biol. Chem.
291
19079-19091
2016
Homo sapiens
Manually annotated by BRENDA team
Reddi, R.; Saddanapu, V.; Chinthapalli, D.; Sankoju, P.; Sripadi, P.; Addlagatta, A.
Human Naa50 protein displays broad substrate specificity for amino-terminal acetylation: Detailed structural and biochemical analysis using tetrapeptide library
J. Biol. Chem.
291
20530-20538
2016
Homo sapiens
Manually annotated by BRENDA team
Hou, F.; Chu, C.; Kong, X.; Yokomori, K.; Zou, H.
The acetyltransferase activity of San stabilizes the mitotic cohesin at the centromeres in a shugoshin-independent manner
J. Cell Biol.
177
587-597
2007
Homo sapiens (Q9GZZ1)
Manually annotated by BRENDA team
Deng, S.; McTiernan, N.; Wei, X.; Arnesen, T.; Marmorstein, R.
Molecular basis for N-terminal acetylation by human NatE and its modulation by HYPK
Nat. Commun.
11
818
2020
Homo sapiens (Q9GZZ1 AND P41227 AND Q9BXJ9), Homo sapiens
Manually annotated by BRENDA team
Lyon, G.
From molecular understanding to organismal biology of N-terminal acetyltransferases
Structure
27
1053-1055
2019
Homo sapiens (Q9GZZ1 AND P41227 AND Q9BXJ9), Saccharomyces cerevisiae (Q08689 AND P41227 AND P12945), Saccharomyces cerevisiae, Saccharomyces cerevisiae ATCC 204508 (Q08689 AND P41227 AND P12945), Schizosaccharomyces pombe, Schizosaccharomyces pombe 972, Schizosaccharomyces pombe ATCC 24843
Manually annotated by BRENDA team
Deng, S.; Magin, R.; Wei, X.; Pan, B.; Petersson, E.; Marmorstein, R.
Structure and mechanism of acetylation by the N-terminal dual enzyme NatA/Naa50 complex
Structure
27
1057-1070.e4
2019
Homo sapiens (Q9GZZ1 AND P41227 AND Q9BXJ9), Homo sapiens, Saccharomyces cerevisiae (Q08689 AND P07347 AND P12945), Saccharomyces cerevisiae, Saccharomyces cerevisiae ATCC 204508 (Q08689 AND P07347 AND P12945), Schizosaccharomyces pombe, Schizosaccharomyces pombe 972, Schizosaccharomyces pombe ATCC 24843
Manually annotated by BRENDA team