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LCN2 lipocalin 2 [ Homo sapiens (human) ]

Gene ID: 3934, updated on 26-Jul-2021

Summary

Official Symbol
LCN2provided by HGNC
Official Full Name
lipocalin 2provided by HGNC
Primary source
HGNC:HGNC:6526
See related
Ensembl:ENSG00000148346 MIM:600181
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
p25; 24p3; MSFI; NGAL
Summary
This gene encodes a protein that belongs to the lipocalin family. Members of this family transport small hydrophobic molecules such as lipids, steroid hormones and retinoids. The protein encoded by this gene is a neutrophil gelatinase-associated lipocalin and plays a role in innate immunity by limiting bacterial growth as a result of sequestering iron-containing siderophores. The presence of this protein in blood and urine is an early biomarker of acute kidney injury. This protein is thought to be be involved in multiple cellular processes, including maintenance of skin homeostasis, and suppression of invasiveness and metastasis. Mice lacking this gene are more susceptible to bacterial infection than wild type mice. [provided by RefSeq, Sep 2015]
Expression
Biased expression in gall bladder (RPKM 1027.2), bone marrow (RPKM 834.0) and 5 other tissues See more
Orthologs
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Genomic context

See LCN2 in Genome Data Viewer
Location:
9q34.11
Exon count:
7
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 9 NC_000009.12 (128149453..128153453)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (130911732..130915732)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene PTGES2 antisense RNA 1 (head to head) Neighboring gene CRISPRi-validated cis-regulatory element chr9.2942 Neighboring gene bublin coiled coil protein Neighboring gene CDKN1A interacting zinc finger protein 1 Neighboring gene dynamin 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables enterobactin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables identical protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables iron ion binding IDA
Inferred from Direct Assay
more info
PubMed 
enables iron ion binding ISS
Inferred from Sequence or Structural Similarity
more info
 
enables protease binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables small molecule binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
involved_in acute-phase response IEA
Inferred from Electronic Annotation
more info
 
involved_in apoptotic process IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to amyloid-beta IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to hydrogen peroxide IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to increased oxygen levels IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to interleukin-1 IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to interleukin-6 IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to lipopolysaccharide IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to nerve growth factor stimulus IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to oxygen-glucose deprivation IEA
Inferred from Electronic Annotation
more info
 
involved_in cellular response to tumor necrosis factor IEA
Inferred from Electronic Annotation
more info
 
involved_in defense response to bacterium IDA
Inferred from Direct Assay
more info
PubMed 
involved_in innate immune response ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in positive regulation of cell projection organization IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of cold-induced thermogenesis ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
involved_in positive regulation of endothelial cell migration IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of endothelial tube morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of gene expression IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of iron ion import across plasma membrane IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of neuron apoptotic process IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of reactive oxygen species biosynthetic process IEA
Inferred from Electronic Annotation
more info
 
involved_in response to blue light IEA
Inferred from Electronic Annotation
more info
 
involved_in response to drug IEA
Inferred from Electronic Annotation
more info
 
involved_in response to herbicide IEA
Inferred from Electronic Annotation
more info
 
involved_in response to iron(II) ion IEA
Inferred from Electronic Annotation
more info
 
involved_in response to mycotoxin IEA
Inferred from Electronic Annotation
more info
 
involved_in sequestering of iron ion IDA
Inferred from Direct Assay
more info
PubMed 
involved_in siderophore transport ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
located_in cytosol IEA
Inferred from Electronic Annotation
more info
 
located_in extracellular exosome HDA PubMed 
located_in extracellular region HDA PubMed 
located_in extracellular region ISS
Inferred from Sequence or Structural Similarity
more info
 
located_in extracellular region TAS
Traceable Author Statement
more info
 
located_in extracellular space HDA PubMed 
is_active_in extracellular space IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in extracellular space IDA
Inferred from Direct Assay
more info
PubMed 
located_in specific granule lumen TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
neutrophil gelatinase-associated lipocalin
Names
25 kDa alpha-2-microglobulin-related subunit of MMP-9
migration-stimulating factor inhibitor
oncogene 24p3
siderocalin LCN2

NCBI Reference Sequences (RefSeq)

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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_005564.5NP_005555.2  neutrophil gelatinase-associated lipocalin precursor

    See identical proteins and their annotated locations for NP_005555.2

    Status: REVIEWED

    Source sequence(s)
    BC033089, BM977724, BX644845
    Consensus CDS
    CCDS6892.1
    UniProtKB/Swiss-Prot
    P80188
    Related
    ENSP00000277480.2, ENST00000277480.7
    Conserved Domains (1) summary
    pfam00061
    Location:49193
    Lipocalin; Lipocalin / cytosolic fatty-acid binding protein family

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p13 Primary Assembly

    Range
    128149453..128153453
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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