XYLB Gene
protein-coding GIFtS: 56
GCID: GC03P038363
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xylulokinase homolog (H. influenzae)(Previous name: xylulokinase (H. influenzae) homolog )
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Aliases
for XYLB gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| Xylulokinase Homolog (H. Influenzae)1 2 | | Xylulokinase (H. Influenzae) Homolog1 | | EC 2.7.1.173 8 | | Xylulose Kinase2 | | FLJ103431 | | Xylulokinase3 | | FLJ125391 | | |
Export aliases for XYLB gene to outside databasesPrevious GC identifers: GC03P037677 GC03P038201 GC03P038348 |
Summaries
for XYLB gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for XYLB:
The protein encoded by this gene shares 22% sequence identity with Hemophilus influenzae xylulokinase, and even higheridentity to other gene products in C.elegans (45%) and yeast (31-35%), which are thought to belong to a family ofenzymes that include fucokinase, gluconokinase, glycerokinase and xylulokinase. These proteins play important roles inenergy metabolism. (provided by RefSeq, Aug 2009)
|
Genomic Views
for XYLB gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000003.11 NC_018914.1 NT_022517.18
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the XYLB gene promoter:
E2F-3a GR E2F-2 LCR-F1 POU2F1 E2F E2F-1 POU2F1a GR-alpha Pax-4a
Other transcription factors
Search SABiosciences Chromatin IP Primers for XYLB
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat XYLB |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 3p22-p21.3 Ensembl cytogenetic band: 3p22.2 HGNC cytogenetic band: 3p22-p21.3XYLB Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 3 GeneLoc Exon Structure GeneLoc location for GC03P038363: view genomic region
(about GC identifiers)
Start:
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38,388,251 bp from pter |
End:
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38,462,839 bp from pter |
Size:
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74,589 bases |
Orientation:
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plus strand |
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Proteins
for XYLB gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: XYLB_HUMAN, O75191 (See
protein sequence)Recommended Name: Xylulose kinase Size: 536 amino acids; 58382 Da
Sequence caution: Sequence=BAA31527.1; Type=Miscellaneous discrepancy; Note=Probable cloning artifact;
4 PDB 3D structures from  and Proteopedia  for XYLB:4BC2 (3D)
4BC3 (3D)
4BC4 (3D)
4BC5 (3D)
Secondary accessions: B2RAW4 B9EH64Explore the universe of human proteins at neXtProt for XYLB: NX_O75191
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_O75191
4/12 DME Specific Peptides for XYLB (O75191) (see all 12)
XYLB Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_005099.2
ENSEMBL proteins: ENSP00000412282 ENSP00000207870 ENSP00000398845 ENSP00000443659
Human Recombinant Protein Products:
XYLB Antibody Products:
Assay Products for XYLB: |
Protein
Domains /
Families
for XYLB gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
XYLB for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry O75191ProtoNet protein and cluster: O75191 UniProtKB/Swiss-Prot: XYLB_HUMAN, O75191Similarity: Belongs to the FGGY kinase family |
Function
for XYLB gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: XYLB_HUMAN, O75191Catalytic activity: ATP + D-xylulose = ADP + D-xylulose 5-phosphate Genatlas biochemistry entry for XYLB:xylulokinase-like,homolog to xylulokinase of H influenzae
Enzyme Number (IUBMB): EC 2.7.1.171 2
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for XYLB (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for XYLB
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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Synthesis Service for XYLB | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XYLB |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XYLB |
Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view): About this table | GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|
| GO:0004856 | xylulokinase activity |
IEA | -- | | GO:0005524 | ATP binding |
IEA | -- | | GO:0016301 | kinase activity |
-- | -- | | GO:0016773 | phosphotransferase activity, alcohol group as acceptor |
-- | -- |
XYLB for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for XYLB:
Animal Models:
8 MGI mutant phenotypes (inferred from 2 alleles ) (MGI details for Xylb):
XYLB for phenotypes About GeneDecksing
|
Pathways & Interactions
for XYLB gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Unified GeneCards pathways About this table
See pathways by source
| Super-pathway | contained gene-specific pathways |
|---|
| 1 | Pentose and glucuronate interconversions | | | 2 | Metabolism | |
Pathway sources
See GeneCards unified pathways
Show all pathways
2 
Kegg Pathways (Kegg details for XYLB):
XYLB for pathways About GeneDecksing
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for XYLB
STRING Interaction
Network Preview (showing 4 interactants - click image to see more details)
5/27 Interacting proteins for XYLB (O751913 ENSP000002078704) via UniProtKB, MINT, STRING, and/or I2D (see all 27)About this table
Gene Ontology (GO): 4 biological process terms (GO ID links to tree view): About this table
XYLB for ontologies About GeneDecksing
|
Drugs & Compounds
for XYLB gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for XYLB
4 HMDB Compounds for XYLB About this table
Search CenterWatch for drugs/clinical trials and news about XYLB
|
Transcripts
for XYLB gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for XYLB gene: NM_005108.3 Unigene Cluster for XYLB: Xylulokinase homolog (H. influenzae) Hs.659985 [show with all ESTs]Unigene Representative Sequence: NM_0051086 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000427323 ENST00000207870(uc003cic.2 uc011ayp.1 uc003cid.1)
ENST00000424034 ENST00000487569 ENST00000472721 ENST00000542835
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for XYLB (see all 3)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for XYLB
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: XYLB (NM_005108) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for XYLB | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XYLB |
Additional cDNA sequence: AK001205.1 AK022601.1 AK025728.1 AK314386.1 BC030231.2 BC039712.1 BC052984.1 BC137076.1 BC137080.1 4 DOTS entries: DT.92068857 DT.97809611 DT.100640731 DT.91814738 24/48 AceView cDNA sequences (see all 48): AU123748 BM013957 BU194672 AK022601 NM_005108 BU733607 CR603420 AK001205 BM709607 BM823852 BX485668 BX390854 BU155907 BE890351 AA360549 AW771907 AK025728 BI090475 BX372193 AL556887 BG761093 AL579011 BI917458 BC039712
GeneLoc Exon Structure
|
Expression
for XYLB gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| XYLB expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See XYLB Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for XYLB
SOURCE GeneReport for Unigene cluster: Hs.659985
SABiosciences Custom PCR Arrays for XYLB
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for XYLB
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat XYLB | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat XYLB | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat XYLB | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XYLB |
Orthologs
for XYLB gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of eukaryotes.
Orthologs for XYLB gene from 9/30 species (see all 30) About this table
ENSEMBL Gene Tree for XYLB (if available)
TreeFam Gene Tree for XYLB (if available) |
Paralogs
for XYLB gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for XYLB gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 3 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for XYLB (38388251 - 38462839 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 3 variations for XYLB
2 CNVs: 6173 6172
1 Indel: 98287 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing XYLB |
|
Disorders
/ Diseases
for XYLB gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
XYLB for disorders About GeneDecksing
OMIM gene information: 604049
OMIM disorders: --
3  diseases for XYLB: About MalaCardsinfluenza lyme disease alcoholism
1 disease from the University of Copenhagen DISEASES database for XYLB:Lyme disease Human Genome Epidemiology (HuGE) Navigator: XYLB (1 document)
Export disorders for XYLB gene to outside databases
|
Publications
for XYLB gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for XYLB gene, integrated from 9 sources (see all 16):
(articles sorted by number of sources associating them with XYLB) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Genomic structure of a novel human gene (XYLB) on chromosome 3p22-->p21.3 encoding a xylulokinase-like protein. (PubMed id 9763671)1, 2, 3, 9 Tamari M.... Nakamura Y. (1998)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- Use of a repetitive seeding protocol to obtain diffrac tion-quality crystals of a putative human D-xylulokinase. (PubMed id 23027762)1 Bunker R.D....Baker E.N. (2012)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
- Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
- Genome-wide association study of electrocardiographic conduction measures in an isolated founder population: Kosrae. (PubMed id 19389651)1 Smith J.G....Newton-Cheh C. (2009)
- The DNA sequence, annotation and analysis of human chromosome 3. (PubMed id 16641997)2 Muzny D.M....Gibbs R.A. (2006)
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External Searches for XYLB gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
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Genome Databases showing XYLB gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing XYLB gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing XYLB gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for XYLB | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for XYLB gene:
Search GeneIP for patents involving XYLB
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for XYLB gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
| | |  | OriGene Antibodies for XYLB | | OriGene shRNA RFP for XYLB | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for XYLB | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for XYLB | | | OriGene Protein Over-expression Lysate for XYLB | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for XYLB | | OriGene 3'-UTR Clone for XYLB | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for XYLB | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for XYLB | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | OriGene Purified Protein for XYLB | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for XYLB | | OriGene Custom Protein Services for XYLB | | | OriGene Custom Immunoassay Development | | |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat XYLB | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing XYLB | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat XYLB | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat XYLB | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat XYLB | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat XYLB |
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 | | | XYLB Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for XYLB |
|  |  |  | | | | ThermoFisher Antibodies for XYLB |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat XYLB |
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