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Synonyms: MetR, MetR-L-homocysteine |
Summary:
MetR participates in controlling several genes involved in methionine biosynthesis [2]and a gene involved in protection against nitric oxide [7] Homocysteine, an intermediate in the biosynthesis of methionine [13] binds to MetR and enhances the activity of some MetR-activated promoters (i.e., metE and glyA) by enhancing the affinity in DNA-binding sites [2, 4] But homocysteine is also able to decrease the activity of other promoters that are activated (i.e., metH, metA, and hmp) or repressed (i.e., metR) by MetR [2, 9, 13] The glyA and hmp genes are transcribed divergently and have a common regulatory region that contains two MetR DNA-binding sites. When homocysteine is present, MetR binds to two MetR sites and activates glyA and represses hmp transcription, but in the absence of homocysteine MetR binds only one site and activates hmp and represses glyA transcription [7] MetR appears to first bind DNA and then homocysteine causes the effect on transcription [9] The nitrosated compound S-nitrosoglutathione (GSNO) removes homocysteine by nitrosation [7] The RNA polymerase and MetR interact for transcription activation, but distinct residues of RNA polymerase are involved in different promoters because the MetR-binding sites are located at different positions [4, 14]. Read more > |
Transcription factor | ![]() ![]() |
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TF conformation(s): |
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Evolutionary Family: | LysR | ||||||||||||||||||
Sensing class: | Using internal synthesized signals | ||||||||||||||||||
Connectivity class: | Local Regulator | ||||||||||||||||||
Gene name: | metR | ||||||||||||||||||
Genome position: | 4011863-4012816 | ||||||||||||||||||
Length: | 954 bp / 317 aa | ||||||||||||||||||
Operon name: | metR | ||||||||||||||||||
TU(s) encoding the TF: |
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Regulon |
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Regulated gene(s) | glyA, hmp, metE, metH, metR | ||||||
Multifun term(s) of regulated gene(s) |
MultiFun Term (List of genes associated to the multifun term)
methionine (3)
amino acids (1)
glycine (1)
formyl-THF biosynthesis (1)
unassigned reversible reactions (1)
Read more >
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Regulated operon(s) | glyA, hmp, metE, metH, metR | ||||||
First gene in the operon(s) | glyA, hmp, metE, metH, metR | ||||||
Simple and complex regulons | FNR,Fur,MetR,NsrR,ppGpp Fur,MetR MetJ,MetR MetJ,MetR,OxyR MetR,PurR | ||||||
Simple and complex regulatory phrases | Regulatory phrase (List of promoters regulated by the phrase) |
Transcription factor regulation |
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Functional conformation | Function | Promoter | Sigma factor | Central Rel-Pos | Distance to first Gene | Genes | Sequence | LeftPos | RightPos | Evidence (Confirmed, Strong, Weak) | References | |
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MetR-L-homocysteine | activator | glyAp | Sigma70 | -143.0 | -210.0 | glyA |
atgtgatgaaGTGAAAAATTTGCATcacaaacctg
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2685710 | 2685724 | [GEA], [IMP], [APIORCISFBSCS], [BPP], [SM] | [3], [4], [5], [6], [7] | |
MetR-L-homocysteine | repressor | glyAp | Sigma70 | -143.0 | -210.0 | glyA |
atgtgatgaaGTGAAAAATTTGCATcacaaacctg
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2685710 | 2685724 | [GEA], [IMP], [APIORCISFBSCS], [BPP], [SM] | [3], [4], [5], [6], [7] | |
MetR-L-homocysteine | activator | glyAp | Sigma70 | -121.0 | -188.0 | glyA |
catcacaaacCTGAAAAGAAATCCGtttccggttg
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2685688 | 2685702 | [GEA], [APIORCISFBSCS], [BPP], [SM] | [3], [4], [5], [6] | |
MetR | activator | hmpp | Sigma38 | -80.0 | -118.0 | hmp |
caggtttgtgATGCAAATTTTTCACttcatcacat
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2685710 | 2685724 | [GEA], [IMP], [APIORCISFBSCS], [BPP], [SM] | [3], [5], [7] | |
MetR-L-homocysteine | activator | metEp | nd | -62.0 | -231.0 | metE |
tacttcgatcATGAAAGTCCTTCACttcggcatga
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4012815 | 4012829 | [GEA], [APIORCISFBSCS], [BPP] | [8], [9], [10], [11] | |
MetR-L-homocysteine | activator | metEp | nd | -41.0 | -210.0 | metE |
tcacttcggcATGAATAATTTGCGCttgaggaata
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4012836 | 4012850 | [GEA], [BPP] | [8], [9], [10], [11] | |
MetR | activator | metHp1 | Sigma70 | -57.0 | -102.0 | metH |
tgagttaatgTTGAACAAATCTCATgttgcgtggt
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4223719 | 4223733 | [GEA], [APIORCISFBSCS] | [8], [9], [10], [12] | |
MetR-L-homocysteine | repressor | metRp1 | nd | 13.0 | -27.0 | metR |
tattcctcaaGCGCAAATTATTCATgccgaagtga
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4012836 | 4012850 | [BPP], [GEA], [BPP] | [8], [9], [10], [11] | |
MetR-L-homocysteine | repressor | metRp1 | nd | 34.0 | -6.0 | metR |
tcatgccgaaGTGAAGGACTTTCATgatcgaagta
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4012815 | 4012829 | [GEA], [APIORCISFBSCS], [BPP] | [8], [9], [10], [11] | |
MetR-L-homocysteine | repressor | metRp2 | nd | -6.0 | -27.0 | metR |
tattcctcaaGCGCAAATTATTCATgccgaagtga
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4012836 | 4012850 | [BPP], [GEA], [BPP] | [8], [9], [10], [11] | |
MetR-L-homocysteine | repressor | metRp2 | nd | 16.0 | -6.0 | metR |
tcatgccgaaGTGAAGGACTTTCATgatcgaagta
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4012815 | 4012829 | [GEA], [APIORCISFBSCS], [BPP] | [8], [9], [10], [11] |
Alignment and PSSM for MetR TFBSs | ![]() |
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Aligned TFBS of MetR |
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Sequence | |
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GATGCAAATTTTTCACTT | |
CATGAAAGTCCTTCACTT | |
CATGAATAATTTGCGCTT | |
CCTGAAAAGAAATCCGTT | |
GTTGAACAAATCTCATGT |
Position weight matrix (PWM). MetR matrix-quality result |
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A 0 3 0 0 4 5 3 4 2 2 1 1 0 0 3 0 0 0 C 3 1 0 0 1 0 1 0 0 1 1 1 0 5 1 3 0 0 G 2 0 0 5 0 0 0 1 1 0 0 0 1 0 1 1 1 0 T 0 1 5 0 0 0 1 0 2 2 3 3 4 0 0 1 4 5 |
Consensus |
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; consensus.strict caTGaAaaaatttCactT ; consensus.strict.rc AAGTGAAATTTTTTCATG ; consensus.IUPAC saTGaAaawwtttCactT ; consensus.IUPAC.rc AAGTGAAAWWTTTTCATS ; consensus.regexp [cg]aTGaAaa[at][at]tttCactT ; consensus.regexp.rc AAGTGAAA[AT][AT]TTTTCAT[CG] |
Evolutionary conservation of regulatory elements | ![]() |
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Reference(s) |
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