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Name: | metR | ||||||||||
Gene(s): | metR Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | In 1989 Urbanowski et al. proposed that, in Salmonella typhimurium, MetR binds to a region of 13 bp (TGAAnnnnnTTCA) Urbanowski ML, Stauffer GV,1989 in the regulatory region located between the divergent genes metE and metR. More recently, Wu et al. showed, in S. typhimurium, that this regulator binds as dimer of dimers in the same region of regulation Lorenz E,1995. The central positions of the MetR binding sites in Escherichia coli have been assigned according to the consensus sequence obtained for S. typhimurium (TGAAnnnnnTTCA). Using a new methodology based on analysis of orthologous sequences, the curator has identified the consensus sequence of MetR (aTGAAaaattTTCAt) of 15 bp, which is similar to the consensus sequence identified in the RegPrecise database (aTGAAaTcaaTTCAt). According to this information, the curator assigned two possible binding sites for MetR, located at bp 16 and -6 of the transcription start site of metRp2. |
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Promoter | |||||||||||
Name: | metRp2 | ||||||||||
+1: | 4012837 | ||||||||||
Distance from start of the gene: | 21 | ||||||||||
Sequence: |
ccagatgtttacacatccataattggcggttactgtatattcctcaagcgcaaattattcAtgccgaagtgaaggactttc |
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Evidence: | [EXP-IDA-TRANSCRIPTION-INIT-MAPPING] | ||||||||||
Reference(s): | [1] Cai XY., et al., 1989 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | MetJ-S-adenosyl-L-methionine | repressor | metRp2 | 4012877 | 4012892 | -47.5 | gccgtccagaTGTTTACACATCCATAattggcggtt | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | nd | [1] |
remote | MetJ-S-adenosyl-L-methionine | repressor | metRp2 | 4012992 | 4013007 | -162.5 | ttttgaatttAGGGAAGGCGGCAAGTttattcatcc | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | nd | [1] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | MetR-L-homocysteine | repressor | metRp2 | 4012815 | 4012829 | 16.0 | tcatgccgaaGTGAAGGACTTTCATgatcgaagta | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [1], [2], [3], [4] |
proximal | MetR-L-homocysteine | repressor | metRp2 | 4012836 | 4012850 | -6.0 | tattcctcaaGCGCAAATTATTCATgccgaagtga | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | S | [1], [2], [3], [4] |
Name: | metR | ||||||||||
Gene(s): | metR Genome Browser M3D Gene expression COLOMBOS | ||||||||||
Note(s): | In 1989 Urbanowski et al. proposed that, in Salmonella typhimurium, MetR binds to a region of 13 bp (TGAAnnnnnTTCA) Urbanowski ML, Stauffer GV,1989 in the regulatory region located between the divergent genes metE and metR. More recently, Wu et al. showed, in S. typhimurium, that this regulator binds as dimer of dimers in the same region of regulation Lorenz E,1995. The central positions of the MetR binding sites in Escherichia coli have been assigned according to the consensus sequence obtained for S. typhimurium (TGAAnnnnnTTCA). Using a new methodology based on analysis of orthologous sequences, the curator has identified the consensus sequence of MetR (aTGAAaaattTTCAt) of 15 bp, which is similar to the consensus sequence identified in the RegPrecise database (aTGAAaTcaaTTCAt). According to this information, the curator assigned two possible binding sites for MetR, located at bp 13 and 34 of the transcription start site of metRp1. |
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Promoter | |||||||||||
Name: | metRp1 | ||||||||||
+1: | 4012855 | ||||||||||
Distance from start of the gene: | 39 | ||||||||||
Sequence: |
acgaaggattttagccgtccagatgtttacacatccataattggcggttactgtatattcCtcaagcgcaaattattcatg |
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Evidence: |
[EXP-IDA-TRANSCRIPTION-INIT-MAPPING] [RS-EPT-CBR] |
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Reference(s): |
[1] Cai XY., et al., 1989 [5] Salgado H, et al., 2012 |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | MetJ-S-adenosyl-L-methionine | repressor | metRp1 | 4012877 | 4012892 | -29.5 | gccgtccagaTGTTTACACATCCATAattggcggtt | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | nd | [1] |
remote | MetJ-S-adenosyl-L-methionine | repressor | metRp1 | 4012992 | 4013007 | -144.5 | ttttgaatttAGGGAAGGCGGCAAGTttattcatcc | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | nd | [1] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
---|---|---|---|---|---|---|---|---|---|---|---|
LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
remote | MetR-L-homocysteine | repressor | metRp1 | 4012815 | 4012829 | 34.0 | tcatgccgaaGTGAAGGACTTTCATgatcgaagta | nd | [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [COMP-HINF-SIMILAR-TO-CONSENSUS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | W | [1], [2], [3], [4] |
proximal | MetR-L-homocysteine | repressor | metRp1 | 4012836 | 4012850 | 13.0 | tattcctcaaGCGCAAATTATTCATgccgaagtga | nd | [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS], [EXP-IEP-GENE-EXPRESSION-ANALYSIS], [EXP-IDA-BINDING-OF-PURIFIED-PROTEINS] | S | [1], [2], [3], [4] |
Type | Transcription factor | Function | Promoter | Binding Sites | Growth Conditions | Evidence | Confidence level (C: Confirmed, S: Strong, W: Weak) | Reference(s) | |||
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LeftPos | RightPos | Central Rel-Pos | Sequence | ||||||||
proximal | OxyR | activator | metRp1 | 4012852 | 4012868 | -5.0 | taattggcggTTACTGTATATTCCTCAagcgcaaatt | nd | [EXP-IEP-RNA-SEQ], [COMP-HINF], [EXP-CHIP-EXO-MANUAL] | S | [6] |
Reference(s) |
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