RegulonDB RegulonDB 10.7: Gene Form
   

ycaD gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

ycaM ycaD ycaC terminator anti-terminator anti-anti-terminator ycaMp3 ycaMp3 ycaMp5 ycaMp5 ycaMp4 ycaMp4 ycaMp2 ycaMp2 ycaDp6 ycaDp6 ycaDp1 ycaDp1

Gene      
Name: ycaD    Texpresso search in the literature
Synonym(s): ECK0889, EG11242, b0898
Genome position(nucleotides): 945871 --> 947019 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
52.05
External database links:  
ASAP:
ABE-0003056
ECHOBASE:
EB1224
OU-MICROARRAY:
b0898
PORTECO:
ycaD
REGULONDB:
b0898
STRING:
511145.b0898
M3D: ycaD
COLOMBOS: ycaD
PortEco: b0898


Product      
Name: putative transporter YcaD
Synonym(s): YcaD
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 41.432
Isoelectric point: 9.838
Motif(s):
 
Type Positions Sequence
14 -> 34 GLLLLTLAIAVLNTLVPLWLA
291 -> 311 ALFILGAAGFTLYPVAMAWAC
204 -> 224 LGVNGCIISGIVLGSLYGLMP
270 -> 290 VQVFVVILGSIAMLSQAAMAP
45 -> 65 VVSSSYFTGNLVGTLLTGYVI

 

Classification:
Multifun Terms (GenProtEC)  
  4 - transport --> 4.2 - Electrochemical potential driven transporters --> 4.2.A - Porters (Uni-, Sym- and Antiporters)
  6 - cell structure --> 6.1 - membrane
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
molecular_function GO:0022857 - transmembrane transporter activity
biological_process GO:0055085 - transmembrane transport
Note(s): Note(s): ...[more].
Evidence: [HIFS] Human inference of function from sequence
Reference(s): [1] Jindal S., et al., 2019
[2] Pao SS., et al., 1998
[3] Paradis-Bleau C., et al., 2014
External database links:  
ECOCYC:
YCAD-MONOMER
ECOLIWIKI:
b0898
INTERPRO:
IPR011701
INTERPRO:
IPR020846
INTERPRO:
IPR023745
INTERPRO:
IPR036259
MODBASE:
P21503
PFAM:
PF07690
PRIDE:
P21503
PROSITE:
PS50850
PROTEINMODELPORTAL:
P21503
REFSEQ:
NP_415418
SMR:
P21503
UNIPROT:
P21503


Operon      
Name: ycaD         
Operon arrangement:
Transcription unit        Promoter
 


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 ycaDp1 945719 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter ycaDp6 945839 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter ycaMp2 947120 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter ycaMp4 947127 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter ycaMp5 947144 forward Similarity to the consensus
Read more >
[ICWHO] [4]
  promoter ycaMp3 947145 forward Similarity to the consensus
Read more >
[ICWHO] [4]


Evidence    

 [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] Pao SS., Paulsen IT., Saier MH., 1998, Major facilitator superfamily., Microbiol Mol Biol Rev 62(1):1-34

 [3] Paradis-Bleau C., Kritikos G., Orlova K., Typas A., Bernhardt TG., 2014, A genome-wide screen for bacterial envelope biogenesis mutants identifies a novel factor involved in cell wall precursor metabolism., PLoS Genet 10(1):e1004056

 [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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