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Literature summary for 3.5.1.88 extracted from

  • Bao, X.; Pachikara, N.D.; Oey, C.B.; Balakrishnan, A.; Westblade, L.F.; Tan, M.; Chase, T.; Nickels, B.E.; Fan, H.
    Non-coding nucleotides and amino acids near the active site regulate peptide deformylase expression and inhibitor susceptibility in Chlamydia trachomatis (2011), Microbiology, 157, 2569-2581.
    View publication on PubMedView publication on EuropePMC
Search for more literature for 3.5.1.88

Cloned(Commentary)

Cloned (Comment) Organism
expressed in Escherichia coli strain ArcticExpress Chlamydia trachomatis

Protein Variants

Protein Variants Comment Organism
F134C the mutation alters the enzyme activity (nearly 2fold higher Km and increased kcat value as compared with the wild type enzyme) and affects protein stability Chlamydia trachomatis
F134C/R137S the mutation alters the enzyme activity (nearly 10fold higher Km, increased kcat and 27% decrease in the kcat/Km value as compared with the wild type enzyme) and is 6.3fold more resistant towards inhibitor GM6001 as the wild type enzyme Chlamydia trachomatis
R137S the mutation alters the enzyme activity (nearly 2fold higher Km and increased kcat value as compared with the wild type enzyme) and affects protein stability Chlamydia trachomatis

Inhibitors

Inhibitors Comment Organism Structure
N-(R)-[2-(hydroxyaminocarbonyl)methyl]-4-methylpentanoyl-L-naphthylalanyl-L-alanine amide
-
 Chlamydia trachomatis
N-[(2R)-2-(hydroxamidocarbonylmethyl)-4-methylpentanoyl]-L-tryptophan methylamide
-
 Chlamydia trachomatis

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
5
-
 N-formyl-Met-Ala-Ser wild type enzyme, at pH 7.2 and 37°C Chlamydia trachomatis
9.2
-
 N-formyl-Met-Ala-Ser mutant enzyme F134C, at pH 7.2 and 37°C Chlamydia trachomatis
9.3
-
 N-formyl-Met-Ala-Ser mutant enzyme R137S, at pH 7.2 and 37°C Chlamydia trachomatis
48
-
 N-formyl-Met-Ala-Ser mutant enzyme F134C/R137S, at pH 7.2 and 37°C Chlamydia trachomatis

Organism

Organism UniProt Comment Textmining
Chlamydia trachomatis
-
-
-
Chlamydia trachomatis GR10
-
-
-

Purification (Commentary)

Purification (Comment) Organism
TALON affinity metal resin column chromatography Chlamydia trachomatis

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
N-formyl-Met-Ala-Ser + H2O
-
 Chlamydia trachomatis formate + Met-Ala-Ser
-
 ?
N-formyl-Met-Ala-Ser + H2O
-
 Chlamydia trachomatis GR10 formate + Met-Ala-Ser
-
 ?

Synonyms

Synonyms Comment Organism
PDF
-
 Chlamydia trachomatis

Turnover Number [1/s]

Turnover Number Minimum [1/s] Turnover Number Maximum [1/s] Substrate Comment Organism Structure
6.4
-
 N-formyl-Met-Ala-Ser wild type enzyme, at pH 7.2 and 37°C Chlamydia trachomatis
19.6
-
 N-formyl-Met-Ala-Ser mutant enzyme F134C, at pH 7.2 and 37°C Chlamydia trachomatis
22.1
-
 N-formyl-Met-Ala-Ser mutant enzyme R137S, at pH 7.2 and 37°C Chlamydia trachomatis
45.3
-
 N-formyl-Met-Ala-Ser mutant enzyme F134C/R137S, at pH 7.2 and 37°C Chlamydia trachomatis

Ki Value [mM]

Ki Value [mM] Ki Value maximum [mM] Inhibitor Comment Organism Structure
0.000148
-
 N-[(2R)-2-(hydroxamidocarbonylmethyl)-4-methylpentanoyl]-L-tryptophan methylamide mutant enzyme R137S, at pH 7.2 and 37°C Chlamydia trachomatis
0.00016
-
 N-[(2R)-2-(hydroxamidocarbonylmethyl)-4-methylpentanoyl]-L-tryptophan methylamide wild type enzyme, at pH 7.2 and 37°C Chlamydia trachomatis
0.001
-
 N-[(2R)-2-(hydroxamidocarbonylmethyl)-4-methylpentanoyl]-L-tryptophan methylamide mutant enzyme F134C/R137S, at pH 7.2 and 37°C Chlamydia trachomatis
143
-
 N-[(2R)-2-(hydroxamidocarbonylmethyl)-4-methylpentanoyl]-L-tryptophan methylamide mutant enzyme F134C, at pH 7.2 and 37°C Chlamydia trachomatis

Expression

Organism Comment Expression
Chlamydia trachomatis the GR10 mutation increases transcription from the chlamydial peptide deformylase promoter by stabilizing interactions between the C-terminal domain of the RNA polymerase alpha subunit and upstream DNA up

kcat/KM [mM/s]

kcat/KM Value [1/mMs-1] kcat/KM Value Maximum [1/mMs-1] Substrate Comment Organism Structure
0.948
-
 N-formyl-Met-Ala-Ser mutant enzyme F134C/R137S, at pH 7.2 and 37°C Chlamydia trachomatis
1.296
-
 N-formyl-Met-Ala-Ser wild type enzyme, at pH 7.2 and 37°C Chlamydia trachomatis
2.143
-
 N-formyl-Met-Ala-Ser mutant enzyme F134C, at pH 7.2 and 37°C Chlamydia trachomatis
2.387
-
 N-formyl-Met-Ala-Ser mutant enzyme R137S, at pH 7.2 and 37°C Chlamydia trachomatis