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Aliases for XYLB Gene

Aliases for XYLB Gene

  • Xylulokinase 2 3 4 5
  • Xylulokinase Homolog (H. Influenzae) 2 3
  • Xylulose Kinase 2 3
  • D-Xylulokinase 2 3
  • EC 2.7.1.17 4 58

External Ids for XYLB Gene

Previous GeneCards Identifiers for XYLB Gene

  • GC03P037677
  • GC03P038201
  • GC03P038348

Summaries for XYLB Gene

Entrez Gene Summary for XYLB Gene

  • The protein encoded by this gene shares 22% sequence identity with Hemophilus influenzae xylulokinase, and even higher identity to other gene products in C.elegans (45%) and yeast (31-35%), which are thought to belong to a family of enzymes that include fucokinase, gluconokinase, glycerokinase and xylulokinase. These proteins play important roles in energy metabolism. [provided by RefSeq, Aug 2009]

GeneCards Summary for XYLB Gene

XYLB (Xylulokinase) is a Protein Coding gene. Among its related pathways are Metabolism and Glycosaminoglycan metabolism. GO annotations related to this gene include phosphotransferase activity, alcohol group as acceptor and xylulokinase activity.

UniProtKB/Swiss-Prot for XYLB Gene

  • Phosphorylates D-xylulose to produce D-xylulose 5-phosphate, a molecule that may play an important role in the regulation of glucose metabolism and lipogenesis.

Additional gene information for XYLB Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for XYLB Gene

Genomics for XYLB Gene

Regulatory Elements for XYLB Gene

Enhancers for XYLB Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03H038346 1.1 ENCODE 5.9 +0.4 382 1 HDGF PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 WDR48 GORASP1 XYLB SCN11A PIR42930
GH03H038267 0.5 Ensembl ENCODE 11 -79.1 -79064 0 RNU6-235P XYLB MYD88 ACAA1 VILL GC03M038270 SLC22A13
GH03H038268 0.4 Ensembl 11 -78.2 -78160 0 SPI1 RNU6-235P XYLB ACAA1 MYD88 VILL DLEC1 GC03M038270 SLC22A13
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around XYLB on UCSC Golden Path with GeneCards custom track

Promoters for XYLB Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000150996 340 1401 HDGF PKNOX1 FOXA2 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for XYLB Gene

Chromosome:
3
Start:
38,346,760 bp from pter
End:
38,453,041 bp from pter
Size:
106,282 bases
Orientation:
Plus strand

Genomic View for XYLB Gene

Genes around XYLB on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
XYLB Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for XYLB Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for XYLB Gene

Proteins for XYLB Gene

  • Protein details for XYLB Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75191-XYLB_HUMAN
    Recommended name:
    Xylulose kinase
    Protein Accession:
    O75191
    Secondary Accessions:
    • B2RAW4
    • B4DDT2
    • B9EH64

    Protein attributes for XYLB Gene

    Size:
    536 amino acids
    Molecular mass:
    58382 Da
    Quaternary structure:
    • Monomer.
    SequenceCaution:
    • Sequence=BAA31527.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for XYLB Gene

    Alternative splice isoforms for XYLB Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for XYLB Gene

Selected DME Specific Peptides for XYLB Gene

O75191:
  • GNLGFYFDVMEITPEIIG
  • KVWSQACL
  • EGQFMAKRIHAEGLGYR
  • ISSYYVQRYGFPPGCKVVAF
  • LTVTSPVLMWVQALD
  • SLGTSDT
  • DGSGMNL
  • ILQVLADVF
  • ERISLVSSFAASLFLG
  • CFKNGSL
  • PALEGHIFCNPVD
  • CCLGWDFSTQQVKVVAVDAEL

Post-translational modifications for XYLB Gene

  • Ubiquitination at Lys178 and Lys494
  • Modification sites at PhosphoSitePlus

Domains & Families for XYLB Gene

Gene Families for XYLB Gene

Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Protein Domains for XYLB Gene

Suggested Antigen Peptide Sequences for XYLB Gene

Graphical View of Domain Structure for InterPro Entry

O75191

UniProtKB/Swiss-Prot:

XYLB_HUMAN :
  • Belongs to the FGGY kinase family.
Family:
  • Belongs to the FGGY kinase family.
genes like me logo Genes that share domains with XYLB: view

Function for XYLB Gene

Molecular function for XYLB Gene

GENATLAS Biochemistry:
xylulokinase-like,homolog to xylulokinase of H influenzae
UniProtKB/Swiss-Prot BiophysicochemicalProperties:
Kinetic parameters: KM=24 uM for D-xylulose {ECO:0000269 PubMed:23179721};
UniProtKB/Swiss-Prot CatalyticActivity:
ATP + D-xylulose = ADP + D-xylulose 5-phosphate.
UniProtKB/Swiss-Prot Function:
Phosphorylates D-xylulose to produce D-xylulose 5-phosphate, a molecule that may play an important role in the regulation of glucose metabolism and lipogenesis.

Enzyme Numbers (IUBMB) for XYLB Gene

Phenotypes From GWAS Catalog for XYLB Gene

Gene Ontology (GO) - Molecular Function for XYLB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004856 xylulokinase activity IDA,TAS 23179721
GO:0005524 ATP binding IEA --
GO:0016301 kinase activity IEA --
GO:0016740 transferase activity IEA --
GO:0016773 phosphotransferase activity, alcohol group as acceptor IEA --
genes like me logo Genes that share ontologies with XYLB: view
genes like me logo Genes that share phenotypes with XYLB: view

Animal Models for XYLB Gene

MGI Knock Outs for XYLB:
  • Xylb tm1a(EUCOMM)Hmgu

Animal Model Products

  • Taconic Biosciences Mouse Models for XYLB

CRISPR Products

miRNA for XYLB Gene

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for XYLB
  • Applied Biological Materials Clones for XYLB
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for XYLB Gene

Localization for XYLB Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for XYLB gene
Compartment Confidence
extracellular 5
cytosol 5
nucleus 2
mitochondrion 1
peroxisome 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nuclear speckles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for XYLB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IBA --
GO:0005829 cytosol TAS --
GO:0070062 extracellular exosome IDA 23376485
genes like me logo Genes that share ontologies with XYLB: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for XYLB Gene

Pathways & Interactions for XYLB Gene

genes like me logo Genes that share pathways with XYLB: view

Pathways by source for XYLB Gene

Gene Ontology (GO) - Biological Process for XYLB Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005975 carbohydrate metabolic process TAS 9763671
GO:0005997 xylulose metabolic process IDA 23179721
GO:0005998 xylulose catabolic process TAS 9763671
GO:0006091 generation of precursor metabolites and energy TAS 9763671
GO:0016310 phosphorylation IEA --
genes like me logo Genes that share ontologies with XYLB: view

No data available for SIGNOR curated interactions for XYLB Gene

Drugs & Compounds for XYLB Gene

(2) Drugs for XYLB Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
D-Xylulose Experimental Pharma 0
ATP Nutra Agonist 0

(2) Additional Compounds for XYLB Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Full agonist, Agonist 58-64-0
Xylulose 5-phosphate
  • D-Xylulose 5-phosphate
  • D-Xylulose 5-PO4
  • D-Xylulose-5-P
  • D-Xylulose-5-phosphate
  • Xu-5-P
4212-65-1
genes like me logo Genes that share compounds with XYLB: view

Transcripts for XYLB Gene

Unigene Clusters for XYLB Gene

Xylulokinase homolog (H. influenzae):
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for XYLB
  • Applied Biological Materials Clones for XYLB
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for XYLB Gene

No ASD Table

Relevant External Links for XYLB Gene

GeneLoc Exon Structure for
XYLB
ECgene alternative splicing isoforms for
XYLB

Expression for XYLB Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for XYLB Gene

mRNA differential expression in normal tissues according to GTEx for XYLB Gene

This gene is overexpressed in Liver (x14.5).

Protein differential expression in normal tissues from HIPED for XYLB Gene

This gene is overexpressed in Liver (20.7), Gallbladder (20.2), and Skin (10.1).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for XYLB Gene



Protein tissue co-expression partners for XYLB Gene

NURSA nuclear receptor signaling pathways regulating expression of XYLB Gene:

XYLB

SOURCE GeneReport for Unigene cluster for XYLB Gene:

Hs.659985

Evidence on tissue expression from TISSUES for XYLB Gene

  • Liver(4.4)
  • Kidney(4.3)
  • Lung(4)
genes like me logo Genes that share expression patterns with XYLB: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for XYLB Gene

Orthologs for XYLB Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for XYLB Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia XYLB 34 33
  • 99.11 (n)
OneToOne
dog
(Canis familiaris)
Mammalia XYLB 33 34
  • 89.05 (n)
cow
(Bos Taurus)
Mammalia XYLB 33 34
  • 88.19 (n)
mouse
(Mus musculus)
Mammalia Xylb 16 34 33
  • 85.45 (n)
rat
(Rattus norvegicus)
Mammalia Xylb 33
  • 84.83 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 74 (a)
OneToMany
-- 34
  • 70 (a)
OneToMany
-- 34
  • 68 (a)
OneToMany
-- 34
  • 66 (a)
OneToMany
-- 34
  • 62 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia XYLB 34
  • 72 (a)
OneToOne
chicken
(Gallus gallus)
Aves XYLB 33 34
  • 71.69 (n)
lizard
(Anolis carolinensis)
Reptilia XYLB 34
  • 71 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia xylb 33
  • 67.56 (n)
zebrafish
(Danio rerio)
Actinopterygii xylb 33 34
  • 64.26 (n)
zgc64119 33
fruit fly
(Drosophila melanogaster)
Insecta CG3534 35 33 34
  • 52.58 (n)
CG3544 35 34
  • 39 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000220 33
  • 51.29 (n)
worm
(Caenorhabditis elegans)
Secernentea R08D7.7 33 34
  • 47.99 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes XKS1 34 36
  • 30 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons XK-2 33
  • 52.13 (n)
rice
(Oryza sativa)
Liliopsida Os07g0640200 33
  • 51.29 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 60 (a)
OneToOne
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.13149 33
Species where no ortholog for XYLB was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for XYLB Gene

ENSEMBL:
Gene Tree for XYLB (if available)
TreeFam:
Gene Tree for XYLB (if available)

Paralogs for XYLB Gene

No data available for Paralogs for XYLB Gene

Variants for XYLB Gene

Sequence variations from dbSNP and Humsavar for XYLB Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs1000004136 -- 38,380,019(+) GGGAG(-/C)TGAGT intron-variant
rs1000026313 -- 38,422,831(+) AAAAA(A/C)CAGTT intron-variant, reference, missense
rs1000039786 -- 38,415,509(+) TGGGA(A/G)TGGTG intron-variant
rs1000048689 -- 38,371,838(+) GCTGA(C/G)AGCAC intron-variant
rs1000178304 -- 38,449,263(+) GACTA(C/T)AGGTA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for XYLB Gene

Variant ID Type Subtype PubMed ID
esv2584185 CNV insertion 19546169
esv3568701 CNV loss 25503493
nsv1114371 CNV deletion 24896259
nsv1129411 OTHER inversion 24896259
nsv237015 CNV deletion 16902084
nsv238024 CNV deletion 16902084
nsv473449 CNV novel sequence insertion 20440878

Variation tolerance for XYLB Gene

Residual Variation Intolerance Score: 86.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 9.80; 89.52% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for XYLB Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
XYLB

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for XYLB Gene

Disorders for XYLB Gene

Relevant External Links for XYLB

Genetic Association Database (GAD)
XYLB
Human Genome Epidemiology (HuGE) Navigator
XYLB
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
XYLB

No disorders were found for XYLB Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for XYLB Gene

Publications for XYLB Gene

  1. Genomic structure of a novel human gene (XYLB) on chromosome 3p22-->p21.3 encoding a xylulokinase-like protein. (PMID: 9763671) Tamari M … Nakamura Y (Cytogenetics and cell genetics 1998) 2 3 4 22 60
  2. Structure and function of human xylulokinase, an enzyme with important roles in carbohydrate metabolism. (PMID: 23179721) Bunker RD … Baker EN (The Journal of biological chemistry 2013) 2 3 4 60
  3. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 45 60
  4. Genome-wide association study of electrocardiographic conduction measures in an isolated founder population: Kosrae. (PMID: 19389651) Smith JG … Newton-Cheh C (Heart rhythm 2009) 3 45 60
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60

Products for XYLB Gene

  • Addgene plasmids for XYLB

Sources for XYLB Gene

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