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XYLB xylulokinase [ Homo sapiens (human) ]

Gene ID: 9942, updated on 11-Sep-2019

Summary

Official Symbol
XYLBprovided by HGNC
Official Full Name
xylulokinaseprovided by HGNC
Primary source
HGNC:HGNC:12839
See related
Ensembl:ENSG00000093217 MIM:604049
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
Summary
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]
Expression
Broad expression in liver (RPKM 5.0), kidney (RPKM 3.6) and 18 other tissues See more
Orthologs

Genomic context

See XYLB in Genome Data Viewer
Location:
3p22.2
Exon count:
26
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (38346760..38453041)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (38388251..38456467)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene solute carrier family 22 member 14 Neighboring gene RNA, U6 small nuclear 235, pseudogene Neighboring gene DLEC1 pseudogene 1 Neighboring gene ACVR2B antisense RNA 1 Neighboring gene activin A receptor type 2B Neighboring gene exo/endonuclease G Neighboring gene D-dopachrome tautomerase pseudogene 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?

Phenotypes

NHGRI GWAS Catalog

Description
Genetic determinants of P wave duration and PR segment.
NHGRI GWA Catalog
Genome-wide association study of electrocardiographic conduction measures in an isolated founder population: Kosrae.
NHGRI GWA Catalog

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ10343, FLJ12539, FLJ22075

Gene Ontology Provided by GOA

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
xylulokinase activity EXP
Inferred from Experiment
more info
PubMed 
xylulokinase activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
xylulokinase activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
D-xylose metabolic process IEA
Inferred from Electronic Annotation
more info
 
carbohydrate metabolic process TAS
Traceable Author Statement
more info
PubMed 
carbohydrate phosphorylation IEA
Inferred from Electronic Annotation
more info
 
generation of precursor metabolites and energy TAS
Traceable Author Statement
more info
PubMed 
glucuronate catabolic process to xylulose 5-phosphate TAS
Traceable Author Statement
more info
 
phosphorylation IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
xylulose catabolic process TAS
Traceable Author Statement
more info
PubMed 
xylulose metabolic process IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
xylulose metabolic process IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytosol IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
xylulose kinase
Names
D-xylulokinase
xylulokinase homolog (H. influenzae)
NP_001336107.1
NP_001336108.1
NP_001336109.1
NP_005099.2
XP_011532627.1
XP_011532629.1
XP_011532630.1
XP_011532631.1
XP_011532632.1
XP_016863084.1
XP_016863085.1
XP_016863086.1
XP_016863088.1
XP_024309618.1

NCBI Reference Sequences (RefSeq)

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_001349178.2NP_001336107.1  xylulose kinase isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AP006191, AP006193
    Conserved Domains (1) summary
    cd07776
    Location:9479
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases
  2. NM_001349179.1NP_001336108.1  xylulose kinase isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks two alternate 5' exons and differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (3) is shorter at the N-terminus and has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AP006191, AP006193
    Conserved Domains (1) summary
    cl17037
    Location:1342
    NBD_sugar-kinase_HSP70_actin; Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily
  3. NM_001349180.2NP_001336109.1  xylulose kinase isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) has an alternate exon in place of most of the 3' exons compared to variant 1. The resulting isoform (4) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AP006193
    Consensus CDS
    CCDS87062.1
    Related
    ENSP00000412282.1, ENST00000427323.5
    Conserved Domains (1) summary
    cl17037
    Location:962
    NBD_sugar-kinase_HSP70_actin; Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily
  4. NM_005108.4NP_005099.2  xylulose kinase isoform 2

    See identical proteins and their annotated locations for NP_005099.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AP006191, AP006193
    Consensus CDS
    CCDS2678.1
    UniProtKB/Swiss-Prot
    O75191
    Related
    ENSP00000207870.3, ENST00000207870.7
    Conserved Domains (2) summary
    PLN02669
    Location:11535
    PLN02669; xylulokinase
    cd07776
    Location:9479
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases

RNA

  1. NR_146068.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) lacks two alternate 5' exons compared to variant 1. This variant is represented as non-coding because the predicted protein does not meet RefSeq quality criteria.
    Source sequence(s)
    AP006191, AP006193

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    38346760..38453041
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011534327.2XP_011532629.1  xylulose kinase isoform X5

    Conserved Domains (2) summary
    cd07776
    Location:9479
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases
    COG1070
    Location:10504
    XylB; Sugar (pentulose or hexulose) kinase [Carbohydrate transport and metabolism]
  2. XM_011534329.2XP_011532631.1  xylulose kinase isoform X7

    Conserved Domains (2) summary
    cd07776
    Location:9479
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases
    COG1070
    Location:10520
    XylB; Sugar (pentulose or hexulose) kinase [Carbohydrate transport and metabolism]
  3. XM_011534328.3XP_011532630.1  xylulose kinase isoform X6

    Conserved Domains (2) summary
    cd07776
    Location:9479
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases
    COG1070
    Location:10504
    XylB; Sugar (pentulose or hexulose) kinase [Carbohydrate transport and metabolism]
  4. XM_011534330.3XP_011532632.1  xylulose kinase isoform X8

    Related
    ENSP00000496840.1, ENST00000650590.1
    Conserved Domains (2) summary
    PLN02669
    Location:11516
    PLN02669; xylulokinase
    cd07776
    Location:9479
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases
  5. XM_011534325.3XP_011532627.1  xylulose kinase isoform X1

    Conserved Domains (5) summary
    cd05482
    Location:678764
    HIV_retropepsin_like; Retropepsins, pepsin-like aspartate proteases
    smart00443
    Location:789822
    G_patch; glycine rich nucleic binding domain
    cd07776
    Location:9479
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases
    COG1070
    Location:10504
    XylB; Sugar (pentulose or hexulose) kinase [Carbohydrate transport and metabolism]
    cl00493
    Location:582658
    trimeric_dUTPase; Trimeric dUTP diphosphatases
  6. XM_017007599.2XP_016863088.1  xylulose kinase isoform X10

  7. XM_017007595.1XP_016863084.1  xylulose kinase isoform X2

  8. XM_017007596.1XP_016863085.1  xylulose kinase isoform X3

  9. XM_024453850.1XP_024309618.1  xylulose kinase isoform X9

    Conserved Domains (1) summary
    cd07776
    Location:1413
    FGGY_D-XK_euk; eukaryotic D-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases
  10. XM_017007597.1XP_016863086.1  xylulose kinase isoform X4

RNA

  1. XR_001740394.2 RNA Sequence

  2. XR_001740393.2 RNA Sequence

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