RegulonDB RegulonDB 11.0: Gene Form
   

ycdY gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ycdX ycdY ycdZ CRP CytR CRP terminator ycdZp4 ycdZp4 TSS_1325 TSS_1325

Gene      
Name: ycdY    Texpresso search in the literature
Synonym(s): ECK1021, G6541, b1035
Genome position(nucleotides): 1099640 --> 1100194
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 53.51
External database links:  
ASAP:
 ABE-0003511
ECHOBASE:
 EB3630
ECOLIHUB:
 ycdY
OU-MICROARRAY:
 b1035
STRING:
 511145.b1035
COLOMBOS: ycdY


Product      
Name: chaperone protein YcdY
Synonym(s): YcdY, protein involved in maturation of YcdX
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 20.724
Isoelectric point: 3.91
Motif(s):
 
Type Positions Sequence Comment
35 -> 147 KLAANWPLEQDELLTRLQKSCDMTQVSADYNALFIGDECAVPPYRSAWVEGATEAEVRAFLSERGMPLADTPADHIGTLLLAASWLEDQSTEDESEALETLFSEYLLPWCGAF

 
Classification:
Multifun Terms (GenProtEC)  
  2 - information transfer --> 2.3 - protein related --> 2.3.4 - chaperoning, repair (refolding)
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0005515 - protein binding
biological_process GO:0006974 - cellular response to DNA damage stimulus
GO:0071978 - bacterial-type flagellum-dependent swarming motility
Note(s): Note(s): ...[more].
External database links:  
ALPHAFOLD:
 P75915
DIP:
 DIP-11519N
ECOCYC:
 G6541-MONOMER
ECOLIWIKI:
 b1035
INTERPRO:
 IPR026269
INTERPRO:
 IPR020945
INTERPRO:
 IPR036411
MODBASE:
 P75915
PFAM:
 PF02613
PRIDE:
 P75915
REFSEQ:
 NP_415553
SMR:
 P75915
UNIPROT:
 P75915


Operon      
Name: ycdXY         
Operon arrangement:
Transcription unit        Promoter
ycdXY


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_1325 1099543 forward nd [RS-EPT-CBR] [1]


Evidence    

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


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.

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