RegulonDB RegulonDB 10.9: Gene Form
   

ygdQ gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ygdQ mutH ygdR MgrR anti-terminator anti-anti-terminator ygdRp5 ygdRp5 TSS_3133 TSS_3133 TSS_3132 TSS_3132 ygdQp3 ygdQp3

Gene      
Name: ygdQ    Texpresso search in the literature
Synonym(s): ECK2828, G7460, b2832
Genome position(nucleotides): 2970420 --> 2971133 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
49.86
External database links:  
ASAP:
ABE-0009290
ECHOBASE:
EB2897
ECOLIHUB:
ygdQ
OU-MICROARRAY:
b2832
STRING:
511145.b2832
COLOMBOS: ygdQ


Product      
Name: UPF0053 inner membrane protein YgdQ
Synonym(s): YgdQ
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 26.157
Isoelectric point: 7.088
Motif(s):
 
Type Positions Sequence
17 -> 203 TLTLLEIVLGIDNIIFLSLVVAKLPTAQRAHARRLGLAGAMVMRLALLASIAWVTRLTNPLFTIFSQEISARDLILLLGGLFLIWKASKEIHESIEGEEEGLKTRVSSFLGAIVQIMLLDIIFSLDSVITAVGLSDHLFIMMAAVVIAVGVMMFAARSIGDFVERHPSVKMLALSFLILVGFTLILE
187 -> 207 MLALSFLILVGFTLILESFDI
51 -> 71 LGLAGAMVMRLALLASIAWVT
80 -> 100 IFSQEISARDLILLLGGLFLI
152 -> 172 DHLFIMMAAVVIAVGVMMFAA

 

Classification:
Multifun Terms (GenProtEC)  
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
Note(s): Note(s): ...[more].
External database links:  
ECOCYC:
G7460-MONOMER
ECOLIWIKI:
b2832
INTERPRO:
IPR005496
PFAM:
PF03741
PRIDE:
P67127
REFSEQ:
NP_417309
UNIPROT:
P67127


Operon      
Name: ygdQ         
Operon arrangement:
Transcription unit        Promoter
ygdQ


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 ygdQp3 2970392 forward Similarity to the consensus
Read more >
[ICWHO] [1]
  promoter TSS_3132 2970394 forward nd [RS-EPT-CBR] [2]
  promoter TSS_3133 2971238 forward nd [RS-EPT-CBR] [2]
  promoter ygdRp5 2971247 forward Similarity to the consensus
Read more >
[ICWHO] [1]


Evidence    

 [ICWHO] Inferred computationally without human oversight

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



Reference(s)    

 [1] 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

 [2] 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.


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