RegulonDB RegulonDB 11.2: Gene Form
   

yciB gene in Escherichia coli K-12 genome


Gene local context to scale (view description)

yciC yciB yciA terminator TSS_1685 TSS_1685 yciBp3 yciBp3 yciAp8 yciAp8

Gene      
Name: yciB    Texpresso search in the literature
Synonym(s): ECK1248, EG11122, b1254
Genome position(nucleotides): 1312351 <-- 1312890
Strand: reverse
Sequence: Get nucleotide sequence FastaFormat
GC content %:  
 46.48
External database links:  
ASAP:
 ABE-0004200
ECHOBASE:
 EB1112
ECOLIHUB:
 yciB
OU-MICROARRAY:
 b1254
STRING:
 511145.b1254
COLOMBOS: yciB


Product      
Name: inner membrane protein
Synonym(s): YciB
Sequence: Get amino acid sequence Fasta Format
Cellular location: inner membrane
Molecular weight: 20.79
Isoelectric point: 10.101
Motif(s):
 
Type Positions Sequence Comment
1 -> 175 MKQFLDFLPLVVFFAFYKIYDIYAATAALIVATAIVLIYSWVRFRKVEKMALITFVLVVVFGGLTLFFHNDEFIKWKVTVIYALFAGALLVSQWVMKKPLIQRMLGKELTLPQPVWSKLNLAWAVFFILCGLANIYIAFWLPQNIWVNFKVFGLTALTLIFTLLSGIYIYRHMPQ
22 -> 42 IYAATAALIVATAIVLIYSWV UniProt: Helical.
50 -> 70 MALITFVLVVVFGGLTLFFHN UniProt: Helical.
76 -> 96 WKVTVIYALFAGALLVSQWVM UniProt: Helical.
99 -> 99 P UniProt: In strain: ECOR 31..

 
Classification:
Multifun Terms (GenProtEC)  
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
molecular_function GO:0005515 - protein binding
biological_process GO:0090529 - cell septum assembly
Note(s): Note(s): ...[more].
Reference(s): [1] Li G., et al., 2015
[2] Li G., et al., 2015
[3] Niba ET., et al., 2007
External database links:  
ALPHAFOLD:
 P0A710
ECOCYC:
 EG11122-MONOMER
ECOLIWIKI:
 b1254
INTERPRO:
 IPR006008
PANTHER:
 PTHR36917
PFAM:
 PF04279
PRIDE:
 P0A710
REFSEQ:
 NP_415770
UNIPROT:
 P0A710


Operon      
Name: yciCB         
Operon arrangement:
Transcription unit        Promoter
yciCB


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 yciAp8 1312414 reverse nd [COMP-AINF] [4]
  promoter yciBp3 1313055 reverse nd [COMP-AINF] [4]
  promoter TSS_1685 1313354 reverse nd [RS-EPT-CBR] [5]


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] Li G., Badaluddin NA., Kitakawa M., 2015, Characterization of inner membrane protein YciB in Escherichia coli: YciB interacts with cell elongation and division proteins., Microbiol Immunol 59(11):700-4

 [2] Li G., Kitakawa M., 2015, Retraction: Topological analysis and functional study of the inner membrane protein YciB in Escherichia coli., J Microbiol Biotechnol

 [3] Niba ET., Naka Y., Nagase M., Mori H., Kitakawa M., 2007, A genome-wide approach to identify the genes involved in biofilm formation in E. coli., DNA Res 14(6):237-46

 [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

 [5] 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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