RegulonDB RegulonDB 10.9: Gene Form
   

cydD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

cydD cydC trxB NarL FNR NarL anti-anti-terminator anti-terminator terminator cydDp cydDp TSS_1059 TSS_1059 TSS_1058 TSS_1058 cydCp5 cydCp5 TSS_1057 TSS_1057

Gene      
Name: cydD    Texpresso search in the literature
Synonym(s): ECK0878, EG11405, b0887, htrD
Genome position(nucleotides): 929196 <-- 930962 Genome Browser
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
53.65
External database links:  
ASAP:
ABE-0003015
CGSC:
31720
ECHOBASE:
EB1377
ECOLIHUB:
cydD
OU-MICROARRAY:
b0887
STRING:
511145.b0887
COLOMBOS: cydD


Product      
Name: glutathione/L-cysteine ABC exporter subunit CydD
Synonym(s): CydD, HtrD, L-cystine reductase subunit CydC
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 65.056
Isoelectric point: 6.389
Motif(s):
 
Type Positions Sequence
29 -> 49 LLGFVSGILIIAQAWFMARIL
64 -> 64 L
350 -> 583 IEAEELFITSPEGKTLAGPLNFTLPAGQRAVLVGRSGSGKSSLLNALSGFLSYQGSLRINGIELRDLSPESWRKHLSWVGQNPQLPAATLRDNVLLARPDASEQELQAALDNAWVSEFLPLLPQGVDTPVGDQAARLSVGQAQRVAVARALLNPCSLLLLDEPAASLDAHSEQRVMEALNAASLRQTTLMVTHQLEDLADWDVIWVMQDGRIIEQGRYAELSVAGGPFATLLAH
427 -> 427 W
24 -> 316 LNISRLLGFVSGILIIAQAWFMARILQHMIMENIPREALLLPFTLLVLTFVLRAWVVWLRERVGYHAGQHIRFAIRRQVLDRLQQAGPAWIQGKPAGSWATLVLEQIDDMHDYYARYLPQMALAVSVPLLIVVAIFPSNWAAALILLGTAPLIPLFMALVGMGAADANRRNFLALARLSGHFLDRLRGMETLRIFGRGEAEIESIRSASEDFRQRTMEVLRLAFLSSGILEFFTSLSIALVAVYFGFSYLGELDFGHYDTGVTLAAGFLALILAPEFFQPLRDLGTFYHAKAQ

 

Classification:
Multifun Terms (GenProtEC)  
  6 - cell structure --> 6.1 - membrane
  4 - transport --> 4.3 - Primary Active Transporters --> 4.3.A - Pyrophosphate Bond (ATP; GTP; P2) Hydrolysis-driven Active Transporters --> 4.3.A.1 - The ATP-binding Cassette (ABC) Superfamily + ABC-type Uptake Permeases --> 4.3.A.1.am - ABC superfamily, ATP binding and membrane component
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0005887 - integral component of plasma membrane
GO:0016021 - integral component of membrane
GO:0043190 - ATP-binding cassette (ABC) transporter complex
molecular_function GO:0016887 - ATPase activity
GO:0042626 - ATPase-coupled transmembrane transporter activity
GO:0000166 - nucleotide binding
GO:0005524 - ATP binding
biological_process GO:0045454 - cell redox homeostasis
GO:0055085 - transmembrane transport
GO:0033228 - cysteine export across plasma membrane
GO:0042883 - cysteine transport
GO:0034775 - glutathione transmembrane transport
Note(s): Note(s): ...[more].
Reference(s): [1] Jindal S., et al., 2019
[2] Mironov A., et al., 2020
External database links:  
DIP:
DIP-9363N
ECOCYC:
CYDD-MONOMER
ECOLIWIKI:
b0887
INTERPRO:
IPR014216
INTERPRO:
IPR039421
INTERPRO:
IPR036640
INTERPRO:
IPR027417
INTERPRO:
IPR017871
INTERPRO:
IPR011527
INTERPRO:
IPR003593
INTERPRO:
IPR003439
MODBASE:
P29018
PANTHER:
PTHR24221
PFAM:
PF00005
PFAM:
PF00664
PRIDE:
P29018
PRODB:
PRO_000022364
PROSITE:
PS50929
PROSITE:
PS50893
PROSITE:
PS00211
REFSEQ:
NP_415407
SMART:
SM00382
SMR:
P29018
UNIPROT:
P29018


Operon      
Name: cydDC         
Operon arrangement:
Transcription unit        Promoter
cydDC


Transcriptional Regulation      
Display Regulation             
Activated by: FNR, ArcA, NarL


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 TSS_1057 928505 reverse nd [RS-EPT-CBR] [3]
  promoter cydCp5 929400 reverse Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter TSS_1058 929741 reverse nd [RS-EPT-CBR] [3]
  promoter TSS_1059 930998 reverse nd [RS-EPT-CBR] [3]


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] Jindal S., Yang L., Day PJ., Kell DB., 2019, Involvement of multiple influx and efflux transporters in the accumulation of cationic fluorescent dyes by Escherichia coli., BMC Microbiol 19(1):195

 [2] Mironov A., Seregina T., Shatalin K., Nagornykh M., Shakulov R., Nudler E., 2020, CydDC functions as a cytoplasmic cystine reductase to sensitize Escherichia coli to oxidative stress and aminoglycosides., Proc Natl Acad Sci U S A 117(38):23565-23570

 [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.

 [4] 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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