RegulonDB RegulonDB 11.1: Gene Form
   

dcyD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

dcyD tcyJ tcyL tcyN anti-anti-terminator anti-terminator terminator TSS_2253 TSS_2253 TSS_2252 TSS_2252 TSS_2251 TSS_2251 dcyDp dcyDp yecCp3 yecCp3

Gene      
Name: dcyD    Texpresso search in the literature
Synonym(s): ECK1918, G7038, b1919, yedO
Genome position(nucleotides): 1998494 <-- 1999480
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 54.0
External database links:  
ASAP:
 ABE-0006389
ECHOBASE:
 EB3792
ECOLIHUB:
 dcyD
OU-MICROARRAY:
 b1919
STRING:
 511145.b1919
COLOMBOS: dcyD


Product      
Name: D-cysteine desulfhydrase
Synonym(s): DcyD, YedO
Sequence: Get amino acid sequence Fasta Format
Cellular location: cytosol
Molecular weight: 35.153
Isoelectric point: 4.685
Motif(s):
 
Type Positions Sequence Comment
2 -> 328 PLHNLTRFPRLEFIGAPTPLEYLPRFSDYLGREIFIKRDDVTPMAMGGNKLRKLEFLAADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPNAQLEELATRVEAQGFRPYVIPVGGSNALGALGYVESALEIAQQCEGAVNISSVVVASGSAGTHAGLAVGLEHLMPESELIGVTVSRSVADQLPKVVNLQQAIAKELELTASAEILLWDDYFAPGYGVPNDEGMEAVKLLARLEGILLDPVYTGKAMAGLIDGISQKRFKDEGPILFIHTGGAPALFAYHPHV UniProt: D-cysteine desulfhydrase.
16 -> 316 GAPTPLEYLPRFSDYLGREIFIKRDDVTPMAMGGNKLRKLEFLAADALREGADTLITAGAIQSNHVRQTAAVAAKLGLHCVALLENPIGTTAENYLTNGNRLLLDLFNTQIEMCDALTDPNAQLEELATRVEAQGFRPYVIPVGGSNALGALGYVESALEIAQQCEGAVNISSVVVASGSAGTHAGLAVGLEHLMPESELIGVTVSRSVADQLPKVVNLQQAIAKELELTASAEILLWDDYFAPGYGVPNDEGMEAVKLLARLEGILLDPVYTGKAMAGLIDGISQKRFKDEGPILFIHTG

 
Classification:
Multifun Terms (GenProtEC)  
  1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.1 - amino acids --> 1.5.1.18 - isoleucine/valine
  1 - metabolism --> 1.5 - biosynthesis of building blocks --> 1.5.1 - amino acids --> 1.5.1.19 - leucine
  1 - metabolism --> 1.8 - metabolism of other compounds --> 1.8.2 - sulfur metabolism
Gene Ontology Terms (GO)  
cellular_component GO:0005829 - cytosol
molecular_function GO:0003824 - catalytic activity
GO:0005515 - protein binding
GO:0016829 - lyase activity
GO:0030170 - pyridoxal phosphate binding
GO:0019148 - D-cysteine desulfhydrase activity
GO:0019149 - 3-chloro-D-alanine dehydrochlorinase activity
GO:0042803 - protein homodimerization activity
biological_process GO:0006790 - sulfur compound metabolic process
GO:0006791 - sulfur utilization
GO:0046416 - D-amino acid metabolic process
GO:0010438 - cellular response to sulfur starvation
GO:0019447 - D-cysteine catabolic process
Note(s): Note(s): ...[more].
Reference(s): [1] Saz A., et al., 1954
External database links:  
ALPHAFOLD:
 P76316
DIP:
 DIP-11847N
ECOCYC:
 DCYSDESULF-MONOMER
ECOLIWIKI:
 b1919
ECOO157CYC:
 YEDO-MONOMER
INTERPRO:
 IPR001926
INTERPRO:
 IPR027278
INTERPRO:
 IPR036052
INTERPRO:
 IPR023702
INTERPRO:
 IPR005966
MODBASE:
 P76316
PANTHER:
 PTHR43780
PFAM:
 PF00291
PRIDE:
 P76316
PRODB:
 PRO_000022417
REFSEQ:
 NP_416429
SMR:
 P76316
UNIPROT:
 P76316


Operon      
Name: dcyD-tcyLN         
Operon arrangement:
Transcription unit        Promoter
dcyD-tcyLN


RNA cis-regulatory element    
Attenuation: Transcriptional


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 yecCp3 1997823 reverse nd [COMP-AINF] [2]
  promoter TSS_2251 2000146 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2252 2000154 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_2253 2000191 reverse nd [RS-EPT-CBR] [3]


Evidence    

 [COMP-AINF] Inferred computationally without human oversight

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


Reference(s)    

 [1] Saz A., Brownell LW., 1954, D-Cysteine desulfhydrase in Escherichia coli., Arch Biochem Biophys 52(1):291-3

 [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

 [3] 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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