|Gene:||prmC||Accession Numbers: EG12424 (EcoCyc), b1212, ECK1200|
PrmC is a protein-(glutamine-N5) methyltransferase that shows activity toward polypeptide chain release factors RF1 and RF2 [Nakahigashi02, HeurgueHamard02]. PrmC was initially reported to be a putative protoporphyrinogen oxidase, based on genetic experiments [Nakayashiki95].
The crystal structure of PrmC is reported at 3.2 Å resolution [Yang04a]. The N terminus may determine methyltransferase substrate specificity [Bujnicki99], and the structure of the putative substrate binding domains of the E. coli and Thermotoga maritima proteins are similar despite their lack of sequence similarity [Yang04a]. The C terminus of the Thermotoga maritima protein contains the active site, and the structure illustrates similarities to DNA methyltransferases within this catalytic region [Schubert03]. The catalytic mechanism is discussed [Schubert03].
A mutant shows a defect in nonsense codon recognition [Nakahigashi02], defects in ribosome progression [Nakahigashi02], and a growth defect [Nakayashiki95] that is suppressed by mutations in polypeptide chain release factor RF2 [Nakahigashi02, HeurgueHamard02]. A mutant shows a defect in heme synthesis from 5-aminolevulinic acid [Nakayashiki95]. A mutant exhibits a global transcription pattern characteristic of anaerobic growth, which may decrease oxidative stress and therefore account for the genetic results originally thought to be indicative of a PrmC role in heme synthesis [Nakahigashi02].
The PrmC/HemK family of proteins shows similarity to gamma subfamily S-adenosyl-methionine-dependent adenine-specific DNA methyltransferases [Bujnicki99]. PrmB and PrmC have sequence similarity to each other; PrmB is active toward ribosomal protein L3, whereas PrmC is active toward polypeptide chain release factors RF1 and RF2 [HeurgueHamard02].
|Map Position: [1,265,317 -> 1,266,150] (27.27 centisomes, 98°)||Length: 834 bp / 277 aa|
Molecular Weight of Polypeptide: 30.975 kD (from nucleotide sequence)
Unification Links: ASAP:ABE-0004068 , CGSC:36992 , EchoBASE:EB2323 , EcoGene:EG12424 , EcoliWiki:b1212 , ModBase:P0ACC1 , OU-Microarray:b1212 , PortEco:prmC , PR:PRO_000022877 , Protein Model Portal:P0ACC1 , RefSeq:NP_415730 , RegulonDB:EG12424 , SMR:P0ACC1 , String:511145.b1212 , UniProt:P0ACC1
Relationship Links: InterPro:IN-FAMILY:IPR002052 , InterPro:IN-FAMILY:IPR004556 , InterPro:IN-FAMILY:IPR019874 , InterPro:IN-FAMILY:IPR025714 , InterPro:IN-FAMILY:IPR029063 , PDB:Structure:1T43 , PDB:Structure:2B3T , Pfam:IN-FAMILY:PF13847
In Paralogous Gene Group: 261 (2 members)
|Biological Process:||GO:0006415 - translational termination
GO:0006479 - protein methylation [GOA01a, Khalid11]
GO:0010468 - regulation of gene expression [Khalid11]
GO:0018364 - peptidyl-glutamine methylation [GOA06, HeurgueHamard02]
GO:0032259 - methylation [UniProtGOA11a, GOA01a]
|Molecular Function:||GO:0008276 - protein methyltransferase activity
GO:0008757 - S-adenosylmethionine-dependent methyltransferase activity [Khalid11]
GO:0036009 - protein-glutamine N-methyltransferase activity [GOA06, HeurgueHamard02]
GO:0003676 - nucleic acid binding [GOA01a]
GO:0008168 - methyltransferase activity [UniProtGOA11a, GOA01a]
GO:0016740 - transferase activity [UniProtGOA11a]
|Cellular Component:||GO:0005829 - cytosol [DiazMejia09]|
|MultiFun Terms:||information transfer → protein related → posttranslational modification|
|Growth Medium||Growth?||T (°C)||O2||pH||Osm/L||Growth Observations|
|LB Lennox||No||37||Aerobic||7||No [Baba06, Comment 1]|
Enzymatic reaction of: protein-(glutamine-N5) methyltransferase
EC Number: 184.108.40.2067
The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction in which it was curated.
The reaction is physiologically favored in the direction shown.
PrmC is a protein-(glutamine-N5) methyltransferase that shows activity toward polypeptide chain release factors RF1 and RF2, which are methylated on the GGQ motif [Nakahigashi02, HeurgueHamard02].
PrmB and PrmC have sequence similarity to each other; PrmB is active toward ribosomal protein L3, whereas PrmC is active toward polypeptide chain release factors RF1 and RF2 [HeurgueHamard02].
|Protein-Segment||117 -> 121|
|Protein-Segment||183 -> 186|
10/20/97 Gene b1212 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12424; confirmed by SwissProt match.
Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554
Bujnicki99: Bujnicki JM, Radlinska M (1999). "Is the HemK family of putative S-adenosylmethionine-dependent methyltransferases a "missing" zeta subfamily of adenine methyltransferases? A hypothesis." IUBMB Life 48(3);247-9. PMID: 10690633
DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114
Graille05: Graille M, Heurgue-Hamard V, Champ S, Mora L, Scrima N, Ulryck N, van Tilbeurgh H, Buckingham RH (2005). "Molecular Basis for Bacterial Class I Release Factor Methylation by PrmC." Mol Cell 20(6);917-27. PMID: 16364916
HeurgueHamard02: Heurgue-Hamard V, Champ S, Engstrom A, Ehrenberg M, Buckingham RH (2002). "The hemK gene in Escherichia coli encodes the N(5)-glutamine methyltransferase that modifies peptide release factors." EMBO J 21(4);769-78. PMID: 11847124
Nakahigashi02: Nakahigashi K, Kubo N, Narita S, Shimaoka T, Goto S, Oshima T, Mori H, Maeda M, Wada C, Inokuchi H (2002). "HemK, a class of protein methyl transferase with similarity to DNA methyl transferases, methylates polypeptide chain release factors, and hemK knockout induces defects in translational termination." Proc Natl Acad Sci U S A 99(3);1473-8. PMID: 11805295
Nakayashiki95: Nakayashiki T, Nishimura K, Inokuchi H (1995). "Cloning and sequencing of a previously unidentified gene that is involved in the biosynthesis of heme in Escherichia coli." Gene 153(1);67-70. PMID: 7883187
Schubert03: Schubert HL, Phillips JD, Hill CP (2003). "Structures along the catalytic pathway of PrmC/HemK, an N5-glutamine AdoMet-dependent methyltransferase." Biochemistry 42(19);5592-9. PMID: 12741815
Yang04a: Yang Z, Shipman L, Zhang M, Anton BP, Roberts RJ, Cheng X (2004). "Structural characterization and comparative phylogenetic analysis of Escherichia coli HemK, a protein (N5)-glutamine methyltransferase." J Mol Biol 340(4);695-706. PMID: 15223314
Choi96: Choi P, Wang L, Archer CD, Elliott T (1996). "Transcription of the glutamyl-tRNA reductase (hemA) gene in Salmonella typhimurium and Escherichia coli: role of the hemA P1 promoter and the arcA gene product." J Bacteriol 1996;178(3);638-46. PMID: 8550494
Darie94: Darie S, Gunsalus RP (1994). "Effect of heme and oxygen availability on hemA gene expression in Escherichia coli: role of the fnr, arcA, and himA gene products." J Bacteriol 1994;176(17);5270-6. PMID: 8071201
Melville96: Melville SB, Gunsalus RP (1996). "Isolation of an oxygen-sensitive FNR protein of Escherichia coli: interaction at activator and repressor sites of FNR-controlled genes." Proc Natl Acad Sci U S A 93(3);1226-31. PMID: 8577745
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