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    Lbp lipopolysaccharide binding protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29469, updated on 27-Nov-2024

    Summary

    Official Symbol
    Lbpprovided by RGD
    Official Full Name
    lipopolysaccharide binding proteinprovided by RGD
    Primary source
    RGD:61865
    See related
    EnsemblRapid:ENSRNOG00000014532 AllianceGenome:RGD:61865
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Bpifd2
    Summary
    Enables lipopolysaccharide binding activity. Involved in several processes, including positive regulation of macrophage activation; positive regulation of phagocytosis, engulfment; and response to ethanol. Located in extracellular space. Used to study obesity. Biomarker of liver cirrhosis; obstructive jaundice; and periodontitis. Orthologous to human LBP (lipopolysaccharide binding protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Liver (RPKM 304.4), Heart (RPKM 58.6) and 5 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Lbp in Genome Data Viewer
    Location:
    3q42
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (167373786..167400941)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (146953889..146981032)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (154786232..154812910)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134486469 Neighboring gene KIAA1755 ortholog Neighboring gene bactericidal/permeability-increasing protein Neighboring gene heterogeneous nuclear ribonucleoprotein A1, pseudogene 15 Neighboring gene dynactin subunit 5, pseudogene 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    General gene information

    Markers

    Clone Names

    • MGC124626

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables coreceptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables coreceptor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipopeptide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables lipopeptide binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipopolysaccharide binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables lipopolysaccharide binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables lipopolysaccharide binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables lipopolysaccharide binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables lipoteichoic acid binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables lipoteichoic acid binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables signaling receptor binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables signaling receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in acute-phase response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in acute-phase response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in acute-phase response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cell surface pattern recognition receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell surface pattern recognition receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to lipopolysaccharide ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in cellular response to lipoteichoic acid IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within cellular response to lipoteichoic acid ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to Gram-negative bacterium IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in defense response to Gram-negative bacterium IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within defense response to Gram-negative bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to Gram-negative bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in defense response to Gram-positive bacterium IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in defense response to Gram-positive bacterium IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in defense response to Gram-positive bacterium ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in detection of molecule of bacterial origin IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in detection of molecule of bacterial origin ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in innate immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in leukocyte chemotaxis involved in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within leukocyte chemotaxis involved in inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lipid transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in lipopolysaccharide transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in lipopolysaccharide transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lipopolysaccharide-mediated signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in lipopolysaccharide-mediated signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in lipopolysaccharide-mediated signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in liver development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in macrophage activation involved in immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in macrophage activation involved in immune response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in macrophage activation involved in immune response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in macrophage activation involved in immune response ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of tumor necrosis factor production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in negative regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neutrophil chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of neutrophil chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of chemokine production IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of chemokine production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-6 production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of interleukin-6 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of interleukin-8 production IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of interleukin-8 production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of macrophage activation IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of macrophage activation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of macrophage activation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of macrophage activation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of neutrophil chemotaxis IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of neutrophil chemotaxis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of phagocytosis, engulfment IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of respiratory burst involved in inflammatory response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of respiratory burst involved in inflammatory response ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of toll-like receptor 4 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of toll-like receptor 4 signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of tumor necrosis factor production IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of tumor necrosis factor production ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of tumor necrosis factor production ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of membrane permeability IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in response to ethanol IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    acts_upstream_of_or_within response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in response to lipopolysaccharide ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in extracellular space IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular space IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in extracellular space IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular space ISO
    Inferred from Sequence Orthology
    more info
     
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    lipopolysaccharide-binding protein
    Names
    BPI fold containing family D, member 2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_017208.2NP_058904.2  lipopolysaccharide-binding protein precursor

      See identical proteins and their annotated locations for NP_058904.2

      Status: PROVISIONAL

      Source sequence(s)
      BC101906
      UniProtKB/Swiss-Prot
      Q63313
      UniProtKB/TrEMBL
      F7FLI1, Q3MID7
      Related
      ENSRNOP00000019787.1, ENSRNOT00000019787.4
      Conserved Domains (2) summary
      cd00025
      Location:31252
      BPI1; BPI/LBP/CETP N-terminal domain; Bactericidal permeability-increasing protein (BPI) / Lipopolysaccharide-binding protein (LBP) / Cholesteryl ester transfer protein (CETP) N-terminal domain; binds to and neutralizes lipopolysaccharides from the outer ...
      pfam02886
      Location:241478
      LBP_BPI_CETP_C; LBP / BPI / CETP family, C-terminal domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      167373786..167400941
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039104447.2XP_038960375.1  lipopolysaccharide-binding protein isoform X2

      Conserved Domains (2) summary
      cd00025
      Location:31252
      BPI1; BPI/LBP/CETP N-terminal domain; Bactericidal permeability-increasing protein (BPI) / Lipopolysaccharide-binding protein (LBP) / Cholesteryl ester transfer protein (CETP) N-terminal domain; binds to and neutralizes lipopolysaccharides from the outer ...
      cl00188
      Location:241307
      BPI; BPI/LBP/CETP domain; Bactericidal permeability-increasing protein (BPI) / Lipopolysaccharide-binding protein (LBP) / Cholesteryl ester transfer protein (CETP) domain; binds to and neutralizes lipopolysaccharides from the outer membrane of Gram-negative ...
    2. XM_039104446.2XP_038960374.1  lipopolysaccharide-binding protein isoform X1

      Conserved Domains (2) summary
      smart00328
      Location:2134
      BPI1; BPI/LBP/CETP N-terminal domain
      pfam02886
      Location:119356
      LBP_BPI_CETP_C; LBP / BPI / CETP family, C-terminal domain
    3. XM_039104448.2XP_038960376.1  lipopolysaccharide-binding protein isoform X3

      Conserved Domains (2) summary
      pfam02886
      Location:42279
      LBP_BPI_CETP_C; LBP / BPI / CETP family, C-terminal domain
      cl00188
      Location:157
      BPI; BPI/LBP/CETP domain; Bactericidal permeability-increasing protein (BPI) / Lipopolysaccharide-binding protein (LBP) / Cholesteryl ester transfer protein (CETP) domain; binds to and neutralizes lipopolysaccharides from the outer membrane of Gram-negative ...