RegulonDB RegulonDB 10.9: Gene Form
   

ygiC gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ygiC ygiD ygiB ygiA zupTp zupTp ygiDp3 ygiDp3 TSS_3341 (cluster) TSS_3341 (cluster) TSS_3340 TSS_3340

Gene      
Name: ygiC    Texpresso search in the literature
Synonym(s): ECK3029, EG11165, b3038
Genome position(nucleotides): 3180421 --> 3181581 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
50.13
External database links:  
ASAP:
ABE-0009971
ECHOBASE:
EB1153
ECOLIHUB:
ygiC
OU-MICROARRAY:
b3038
STRING:
511145.b3038
COLOMBOS: ygiC


Product      
Name: putative acid—amine ligase YgiC
Synonym(s): YgiC, putative enzyme with ATPase activity
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 45.026
Isoelectric point: 4.393
Motif(s):
 
Type Positions Sequence
371 -> 373 LIT
12 -> 384 WREKAHEYGFNFHTMYGEPYWCEDAYYKLTLAQVEKLEEVTAELHQMCLKVVEKVIASDELMTKFRIPKHTWSFVRQSWLTHQPSLYSRLDLAWDGTGEPKLLENNADTPTSLYEAAFFQWIWLEDQLNAGNLPEGSDQFNSLQEKLIDRFVELREQYGFQLLHLTCCRDTVEDRGTIQYLQDCATEAEIATEFLYIDDIGLGEKGQFTDLQDQVISNLFKLYPWEFMLREMFSTKLEDAGVRWLEPAWKSIISNKALLPLLWEMFPNHPNLLPAYFAEDDHPQMEKYVVKPIFSREGANVSIIENGKTIEAAEGPYGEEGMIVQQFHPLPKFGDSYMLIGSWLVNDQPAGIGIREDRALITQDMSRFYPHIF
100 -> 102 RLD

 

Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0046872 - metal ion binding
GO:0016874 - ligase activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
Note(s): Note(s): ...[more].
External database links:  
DIP:
DIP-48176N
ECOCYC:
EG11165-MONOMER
ECOLIWIKI:
b3038
INTERPRO:
IPR005494
INTERPRO:
IPR016185
PFAM:
PF03738
PRIDE:
P0ADT5
REFSEQ:
NP_417510
SMR:
P0ADT5
UNIPROT:
P0ADT5


Operon      
Name: tolC-ygiBC         
Operon arrangement:
Transcription unit        Promoter
tolC-ygiBC
tolC-ygiBC
tolC-ygiBC
tolC-ygiBC


Transcriptional Regulation      
Display Regulation             
Activated by: MarA, PhoP, SoxS, Rob


Elements in the selected gene context region unrelated to any object in RegulonDB      

  Type Name Post Left Post Right Strand Notes Evidence (Confirmed, Strong, Weak) References
  promoter TSS_3340 3180436 forward nd [RS-EPT-CBR] [1]
  promoter TSS_3341 (cluster) 3182422 forward For this promoter, there
Read more >
[RS-EPT-CBR] [1]
  promoter ygiDp3 3182429 reverse Similarity to the consensus
Read more >
[ICWHO] [2]


Evidence    

 [RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

 [ICWHO] Inferred computationally without human oversight



Reference(s)    

 [1] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

 [2] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78


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