Human Gene GBP2 (uc001dmz.1)
  Description: Homo sapiens guanylate binding protein 2, interferon-inducible (GBP2), mRNA.
RefSeq Summary (NM_004120): This gene belongs to the guanine-binding protein (GBP) family, which includes interferon-induced proteins that can bind to guanine nucleotides (GMP, GDP and GTP). The encoded protein is a GTPase which hydrolyzes GTP, predominantly to GDP. The protein may play a role as a marker of squamous cell carcinomas. [provided by RefSeq, Jul 2013].
Transcript (Including UTRs)
   Position: hg19 chr1:89,573,310-89,591,799 Size: 18,490 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr1:89,573,858-89,587,649 Size: 13,792 Coding Exon Count: 10 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:89,573,310-89,591,799)mRNA (may differ from genome)Protein (591 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeTreefamUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GBP2_HUMAN
DESCRIPTION: RecName: Full=Interferon-induced guanylate-binding protein 2; AltName: Full=GTP-binding protein 2; Short=GBP-2; Short=HuGBP-2; AltName: Full=Guanine nucleotide-binding protein 2; Flags: Precursor;
FUNCTION: Hydrolyzes GTP to GMP in two consecutive cleavage reactions. Exhibits antiviral activity against influenza virus. Promote oxidative killing and deliver antimicrobial peptides to autophagolysosomes, providing broad host protection against different pathogen classes (By similarity).
SUBUNIT: Homodimerizes upon GTP-binding, dimerization is required for the second hydrolysis step from GDP to GMP. Can also heterodimerize with other members of the family.
SUBCELLULAR LOCATION: Cytoplasm. Nucleus. Golgi apparatus membrane; Lipid-anchor.
INDUCTION: By IFNG/IFN-gamma during macrophage activation, and by TNF-alpha and IL-1beta.
SIMILARITY: Belongs to the GBP family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): GBP2
CDC HuGE Published Literature: GBP2
Positive Disease Associations: Cholesterol, LDL
Related Studies:
  1. Cholesterol, LDL
    , , . [PubMed 0]

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 54.21 RPKM in Whole Blood
Total median expression: 777.81 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -79.41271-0.293 Picture PostScript Text
3' UTR -138.33548-0.252 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR003191 - Guanylate-bd_C
IPR015894 - Guanylate-bd_N

Pfam Domains:
PF02263 - Guanylate-binding protein, N-terminal domain
PF02841 - Guanylate-binding protein, C-terminal domain

SCOP Domains:
48340 - Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain
52540 - P-loop containing nucleoside triphosphate hydrolases

ModBase Predicted Comparative 3D Structure on P32456
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0016787 hydrolase activity
GO:0042803 protein homodimerization activity

Biological Process:
GO:0006955 immune response
GO:0034504 protein localization to nucleus
GO:0060333 interferon-gamma-mediated signaling pathway
GO:0060337 type I interferon signaling pathway
GO:0071346 cellular response to interferon-gamma
GO:0071347 cellular response to interleukin-1
GO:0071356 cellular response to tumor necrosis factor

Cellular Component:
GO:0000139 Golgi membrane
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005794 Golgi apparatus
GO:0005829 cytosol
GO:0015629 actin cytoskeleton
GO:0016020 membrane
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AL832451 - Homo sapiens mRNA; cDNA DKFZp451C2311 (from clone DKFZp451C2311); complete cds.
M55543 - Human guanylate binding protein isoform II (GBP-2) mRNA, complete cds.
AK226018 - Homo sapiens mRNA for Interferon-induced guanylate-binding protein 2 variant, clone: FCC106G05.
AK057968 - Homo sapiens cDNA FLJ25239 fis, clone STM02435, highly similar to INTERFERON-INDUCED GUANYLATE-BINDING PROTEIN 2.
BC073163 - Homo sapiens guanylate binding protein 2, interferon-inducible, mRNA (cDNA clone MGC:87973 IMAGE:6151056), complete cds.
JD184701 - Sequence 165725 from Patent EP1572962.
CR457062 - Homo sapiens full open reading frame cDNA clone RZPDo834E0514D for gene GBP2, guanylate binding protein 2, interferon-inducible; complete cds, incl. stopcodon.
AK314325 - Homo sapiens cDNA, FLJ95085, highly similar to Homo sapiens guanylate binding protein 2, interferon-inducible(GBP2), mRNA.
KJ896870 - Synthetic construct Homo sapiens clone ccsbBroadEn_06264 GBP2 gene, encodes complete protein.
AB591000 - Synthetic construct DNA, clone: pFN21AE2205, Homo sapiens GBP2 gene for guanylate binding protein 2, interferon-inducible, without stop codon, in Flexi system.
BC022272 - Homo sapiens guanylate binding protein 2, interferon-inducible, mRNA (cDNA clone MGC:22351 IMAGE:4688776), complete cds.
AK122866 - Homo sapiens cDNA FLJ16497 fis, clone CTONG3006659, highly similar to INTERFERON-INDUCED GUANYLATE-BINDING PROTEIN 2.
CU687254 - Synthetic construct Homo sapiens gateway clone IMAGE:100023010 5' read GBP2 mRNA.
LC420319 - Homo sapiens GBP2 mRNA for guanylate-binding protein 2, partial cds.
JD363919 - Sequence 344943 from Patent EP1572962.
JD287248 - Sequence 268272 from Patent EP1572962.
JD308343 - Sequence 289367 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P32456 (Reactome details) participates in the following event(s):

R-HSA-909733 Interferon alpha/beta signaling
R-HSA-877300 Interferon gamma signaling
R-HSA-913531 Interferon Signaling
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: GBP2_HUMAN, NM_004120, NP_004111, P32456, Q6GPH0, Q6IAU2, Q86TB0
UCSC ID: uc001dmz.1
RefSeq Accession: NM_004120
Protein: P32456 (aka GBP2_HUMAN)
CCDS: CCDS719.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_004120.3
exon count: 11CDS single in 3' UTR: no RNA size: 2595
ORF size: 1776CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 3752.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 450# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.