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IDNK IDNK gluconokinase [ Homo sapiens (human) ]

Gene ID: 414328, updated on 2-Nov-2024

Summary

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Official Symbol
IDNKprovided by HGNC
Official Full Name
IDNK gluconokinaseprovided by HGNC
Primary source
HGNC:HGNC:31367
See related
Ensembl:ENSG00000148057 MIM:611343; AllianceGenome:HGNC:31367
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
hGntK; C9orf103; bA522I20.2
Summary
Predicted to enable gluconokinase activity. Predicted to be involved in D-gluconate catabolic process. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in kidney (RPKM 3.7), liver (RPKM 2.2) and 25 other tissues See more
Orthologs
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Genomic context

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See IDNK in Genome Data Viewer
Location:
9q21.32
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (83623006..83644123)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (95772739..95793849)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (86238058..86259038)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene FERM domain containing 3 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28492 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28493 Neighboring gene Sharpr-MPRA regulatory region 3056 Neighboring gene Sharpr-MPRA regulatory region 13153 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28494 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28495 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19977 Neighboring gene RNA, U4 small nuclear 15, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:86243894-86244482 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:86244483-86245069 Neighboring gene ubiquilin 1 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:86321896-86322786 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:86322787-86323675 Neighboring gene uncharacterized LOC124902191 Neighboring gene UBQLN1 antisense RNA 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues 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

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Related articles in PubMed

  1. Kinetic analysis of gluconate phosphorylation by human gluconokinase using isothermal titration calorimetry. Rohatgi N, et al. FEBS Lett, 2015 Nov 30. PMID 26505675
  2. Biochemical characterization of human gluconokinase and the proposed metabolic impact of gluconic acid as determined by constraint based metabolic network analysis. Rohatgi N, et al. PLoS One, 2014. PMID 24896608, Free PMC Article
  3. Inferring the metabolism of human orphan metabolites from their metabolic network context affirms human gluconokinase activity. Rolfsson Ó, et al. Biochem J, 2013 Jan 15. PMID 23067238
  4. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. Wang AG, et al. Biochem Biophys Res Commun, 2006 Jul 7. PMID 16712791
  5. Toward a confocal subcellular atlas of the human proteome. Barbe L, et al. Mol Cell Proteomics, 2008 Mar. PMID 18029348

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Data show that C9orf103 encodes a functional gluconokinase.
    Title: Inferring the metabolism of human orphan metabolites from their metabolic network context affirms human gluconokinase activity.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables gluconokinase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
involved_in D-gluconate catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in D-gluconate catabolic process IEA
Inferred from Electronic Annotation
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in phosphorylation IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
probable gluconokinase
Names
glucokinase-like protein
gluconate kinase
gluconokinase-like protein
idnK, gluconokinase homolog
NP_001001551.2
NP_001243844.1
NP_001338464.1
XP_006717173.2
XP_006717174.1
XP_047279359.1
XP_054218962.1
XP_054218963.1
XP_054218964.1

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_001001551.4 → NP_001001551.2  probable gluconokinase isoform 1

    See identical proteins and their annotated locations for NP_001001551.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (1).
    Source sequence(s)
    AY615889, BC036421
    Consensus CDS
    CCDS35048.2
    UniProtKB/Swiss-Prot
    A5PLN6, Q5T6J6, Q5T6J7
    Related
    ENSP00000365601.4, ENST00000376419.5
    Conserved Domains (2) summary
    COG3265
    Location:10 → 185
    GntK; Gluconate kinase [Carbohydrate transport and metabolism]
    pfam13671
    Location:7 → 158
    AAA_33; AAA domain

  2. NM_001256915.2 → NP_001243844.1  probable gluconokinase isoform 3

    See identical proteins and their annotated locations for NP_001243844.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) is shorter at the N-terminus, compared to isoform 1. Variants 3 and 5 encode the same isoform (3).
    Source sequence(s)
    AY615889, BC036421, CB151823
    Consensus CDS
    CCDS59134.1
    Related
    ENSP00000403290.2, ENST00000454393.5
    Conserved Domains (1) summary
    cl17190
    Location:1 → 139
    NK; Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates ...

  3. NM_001351535.2 → NP_001338464.1  probable gluconokinase isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in its 5' UTR and uses a downstream in-frame start codon, compared to variant 1. The encoded isoform (3) is shorter at the N-terminus, compared to isoform 1. Variants 3 and 5 encode the same isoform (3).
    Source sequence(s)
    AY615889, BC036421, CB151823
    Consensus CDS
    CCDS59134.1
    Conserved Domains (1) summary
    cl17190
    Location:1 → 139
    NK; Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates ...

RNA

  1. NR_046421.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon in the 5' region, compared to variant 1. This variant is represented as non-coding because the predicted ORF is mostly in a different reading frame and it lacks sufficient support for protein representation.
    Source sequence(s)
    BC036421, CA866332

  2. NR_046422.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) includes an additional exon in the 5' region, compared to variant 1. This variant is represented as non-coding because the use of the supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL354920, AY615889, BC036421
    Related
    ENST00000533522.1

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    83623006..83644123
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006717110.4 → XP_006717173.2  probable gluconokinase isoform X1

  2. XM_006717111.5 → XP_006717174.1  probable gluconokinase isoform X2

    Conserved Domains (1) summary
    COG3265
    Location:18 → 186
    GntK; Gluconate kinase [Carbohydrate transport and metabolism]

  3. XM_047423403.1 → XP_047279359.1  probable gluconokinase isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    95772739..95793849
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054362987.1 → XP_054218962.1  probable gluconokinase isoform X1

  2. XM_054362988.1 → XP_054218963.1  probable gluconokinase isoform X2

  3. XM_054362989.1 → XP_054218964.1  probable gluconokinase isoform X3

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001190727.1: Suppressed sequence

    Description
    NM_001190727.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5T6J7.1 GenPept UniProtKB/Swiss-Prot:Q5T6J7

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