RegulonDB RegulonDB 10.8: Gene Form
   

ybbP gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

rhsD ybbP ybbA tesA ybbO TSS_665 TSS_665 rhsDp8 rhsDp8 tesAp tesAp TSS_664 TSS_664 ybbOp4 ybbOp4

Gene      
Name: ybbP    Texpresso search in the literature
Synonym(s): ECK0490, G6270, b0496
Genome position(nucleotides): 520416 --> 522830 Genome Browser
Strand: forward
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 57.6
External database links:  
ASAP:
 ABE-0001720
ECHOBASE:
 EB3051
OU-MICROARRAY:
 b0496
PortEco:
 ybbP
STRING:
 511145.b0496
COLOMBOS: ybbP


Product      
Name: putative ABC transporter membrane subunit YbbP
Synonym(s): YbbP
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 89.332
Isoelectric point: 9.78
Motif(s):
 
Type Positions Sequence
15 -> 35 LLIVWLALSLAVACVLALGNI
301 -> 321 LSAVTGGAIGLLFENVLMVLL
333 -> 353 SLWPWLWALGTMTVISLLVGL
403 -> 423 LLWAVLAGAVVLALLCGVLGW
243 -> 263 FLLLSALLTLLLAVAAVAVAM

 
Classification:
Multifun Terms (GenProtEC)  
  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
Gene Ontology Terms (GO)  
cellular_component GO:0016020 - membrane
GO:0005886 - plasma membrane
GO:0016021 - integral component of membrane
GO:0043190 - ATP-binding cassette (ABC) transporter complex
Note(s): Note(s): ...[more].
Reference(s): [1] Jindal S., et al., 2019
External database links:  
DIP:
 DIP-11324N
ECOCYC:
 YBBP-MONOMER
ECOLIWIKI:
 b0496
INTERPRO:
 IPR038766
MINT:
 MINT-1286702
PANTHER:
 PTHR30287
PRIDE:
 P77504
REFSEQ:
 NP_415029
SMR:
 P77504
UNIPROT:
 P77504


Operon      
Name: ybbAP         
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 ybbOp4 519329 reverse Similarity to the consensus
Read more > 		[ICWHO] [2]
  promoter TSS_664 519797 reverse nd [RS-EPT-CBR] [3]
  promoter rhsDp8 523066 forward Similarity to the consensus
Read more > 		[ICWHO] [2]
  promoter TSS_665 526934 forward nd [RS-EPT-CBR] [3]


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] 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] 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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