IDNK

Summary

IDNK (IDNK gluconokinase, HGNC:31367) is a protein-coding gene on chromosome 9q21.32, encoding Probable gluconokinase (Q5T6J7).

Predicted to enable gluconokinase activity. Predicted to be involved in carbohydrate metabolic process.

Source: NCBI Gene 414328 — RefSeq curated summary.

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 53 total
• MANE Select transcript: NM_001001551

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:31367
Approved symbol	IDNK
Name	IDNK gluconokinase
Location	9q21.32
Locus type	gene with protein product
Status	Approved
Aliases	bA522I20.2, hGntK
Ensembl gene	ENSG00000148057
Ensembl biotype	protein_coding
OMIM	611343
Entrez	414328

Gene structure

Transcript identifiers

Ensembl transcripts: 8 — 7 protein_coding, 1 nonsense_mediated_decay

ENST00000376417, ENST00000376419, ENST00000405990, ENST00000454393, ENST00000530832, ENST00000533522, ENST00000904783, ENST00000904784

RefSeq mRNA: 3 — MANE Select: NM_001001551 NM_001001551, NM_001256915, NM_001351535

CCDS: CCDS35048, CCDS59134

Canonical transcript exons

ENST00000376419 — 5 exons

Exon	Start	End
ENSE00001902769	83643429	83644123
ENSE00003605298	83628873	83628959
ENSE00003646669	83641548	83641591
ENSE00003678338	83628181	83628211
ENSE00003849463	83623143	83623221

Expression profiles

Bgee: expression breadth ubiquitous, 238 present calls, max score 98.47.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 2.9335 / max 75.1101, expressed in 1342 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter ID	TPM avg	Samples expressed
97093	2.5446	1226
97091	0.2617	122
97092	0.1272	31

Top tissues by expression

247 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
kidney epithelium	UBERON:0004819	98.47	gold quality
nucleus accumbens	UBERON:0001882	94.65	gold quality
thymus	UBERON:0002370	94.04	gold quality
ileal mucosa	UBERON:0000331	93.11	gold quality
putamen	UBERON:0001874	92.67	gold quality
caudate nucleus	UBERON:0001873	92.36	gold quality
right lobe of liver	UBERON:0001114	92.31	gold quality
epithelium of nasopharynx	UBERON:0001951	90.84	gold quality
amygdala	UBERON:0001876	90.62	gold quality
liver	UBERON:0002107	90.42	gold quality
duodenum	UBERON:0002114	89.89	gold quality
adult mammalian kidney	UBERON:0000082	89.81	gold quality
jejunal mucosa	UBERON:0000399	89.70	gold quality
hypothalamus	UBERON:0001898	89.46	gold quality
anterior cingulate cortex	UBERON:0009835	89.46	gold quality
ventral tegmental area	UBERON:0002691	89.34	silver quality
cerebellar hemisphere	UBERON:0002245	89.32	gold quality
cerebellar cortex	UBERON:0002129	89.28	gold quality
vena cava	UBERON:0004087	89.15	gold quality
right hemisphere of cerebellum	UBERON:0014890	89.15	gold quality
subthalamic nucleus	UBERON:0001906	88.98	silver quality
cerebellar vermis	UBERON:0004720	88.97	gold quality
cardia of stomach	UBERON:0001162	88.96	silver quality
cerebellum	UBERON:0002037	88.92	gold quality
pons	UBERON:0000988	88.87	gold quality
renal medulla	UBERON:0000362	88.69	gold quality
epithelial cell of pancreas	CL:0000083	88.34	gold quality
superior vestibular nucleus	UBERON:0007227	88.34	gold quality
mucosa of paranasal sinus	UBERON:0005030	88.28	silver quality
left ventricle myocardium	UBERON:0006566	88.26	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	3.25

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

25 targeting IDNK, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-6740-5P	100.00	65.64	932
HSA-MIR-5696	99.98	72.36	4487
HSA-MIR-19A-3P	99.98	75.33	2762
HSA-MIR-19B-3P	99.98	75.44	2754
HSA-MIR-579-3P	99.86	71.66	3628
HSA-MIR-664B-3P	99.84	71.65	3590
HSA-MIR-3180-5P	99.82	69.12	2422
HSA-MIR-3059-5P	99.70	69.93	2491
HSA-MIR-494-3P	99.70	71.45	2795
HSA-MIR-4729	99.69	72.18	4233
HSA-MIR-2113	99.58	71.22	1521
HSA-MIR-183-5P	99.31	72.27	1164
HSA-MIR-642A-3P	99.23	67.67	1258
HSA-MIR-642B-3P	99.23	67.67	1258
HSA-MIR-100-3P	99.20	67.33	672
HSA-MIR-7151-3P	99.04	69.72	2370
HSA-MIR-487A-5P	98.85	69.37	993
HSA-MIR-487B-5P	98.85	69.48	987
HSA-MIR-6780A-3P	98.42	67.49	1518
HSA-MIR-338-3P	98.14	67.38	1137
HSA-MIR-6855-5P	97.51	66.03	830
HSA-MIR-148B-5P	97.29	66.30	992
HSA-MIR-6874-3P	97.29	66.34	975
HSA-MIR-4776-5P	97.14	66.63	405
HSA-MIR-2277-3P	91.94	62.27	299

Literature-anchored findings (GeneRIF, showing 1)

• Data show that C9orf103 encodes a functional gluconokinase. (PMID:23067238)

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
mus_musculus	Idnk	ENSMUSG00000050002
rattus_norvegicus	Idnk	ENSRNOG00000019519
caenorhabditis_elegans		WBGENE00014160

Protein

Protein identifiers

Probable gluconokinase — Q5T6J7 (reviewed: Q5T6J7)

Alternative names: Gluconate kinase

All UniProt accessions (5): Q5T6J7, E9PP74, E9PP88, F8W7J0, Q5T6J8

UniProt curated annotations — full annotation on UniProt →

Pathway. Carbohydrate acid metabolism; D-gluconate degradation.

Similarity. Belongs to the gluconokinase GntK/GntV family.

Isoforms (3)

UniProt ID	Names	Canonical?
Q5T6J7-1	1	yes
Q5T6J7-2	2
Q5T6J7-3	3

RefSeq proteins (3): NP_001001551, NP_001243844, NP_001338464 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR006001	Therm_gnt_kin	Family
IPR027417	P-loop_NTPase	Homologous_superfamily
IPR031322	Shikimate/glucono_kinase	Family

Pfam: PF01202

Enzyme classification (BRENDA):

• EC 2.7.1.12 — gluconokinase (BRENDA: 15 organisms, 16 substrates, 11 inhibitors, 15 Km, 2 kcat entries)

Substrate kinetics (BRENDA)

2 substrates with measured Km, best-characterized 2. Km ranges are aggregated across organisms/conditions.

Substrate	Km (mM)	Measurements
ATP	0.045–1.04	6
D-GLUCONATE	0.02–1.74	6

Catalyzed reactions (Rhea), 1 shown:

• D-gluconate + ATP = 6-phospho-D-gluconate + ADP + H(+) (RHEA:19433)

UniProt features (5 total): splice variant 2, chain 1, binding site 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q5T6J7-F1	88.75	0.75

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Ligand- & substrate-binding residues (1): 11–18

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 104 (showing top): GSE45365_NK_CELL_VS_CD8A_DC_UP, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, ACEVEDO_NORMAL_TISSUE_ADJACENT_TO_LIVER_TUMOR_DN, CHANDRAN_METASTASIS_DN, GOBP_CARBOHYDRATE_METABOLIC_PROCESS, NUYTTEN_EZH2_TARGETS_DN, MASSARWEH_TAMOXIFEN_RESISTANCE_UP, chr9q21, GOMF_KINASE_ACTIVITY, DODD_NASOPHARYNGEAL_CARCINOMA_DN, GOMF_ADENYL_NUCLEOTIDE_BINDING, GOMF_TRANSFERASE_ACTIVITY_TRANSFERRING_PHOSPHORUS_CONTAINING_GROUPS, MIKKELSEN_ES_ICP_WITH_H3K4ME3, MIKKELSEN_NPC_ICP_WITH_H3K4ME3, PEDRIOLI_MIR31_TARGETS_DN

GO Biological Process (1): carbohydrate metabolic process (GO:0005975)

GO Molecular Function (5): ATP binding (GO:0005524), gluconokinase activity (GO:0046316), nucleotide binding (GO:0000166), kinase activity (GO:0016301), transferase activity (GO:0016740)

GO Cellular Component (0):

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
primary metabolic process	1
adenyl ribonucleotide binding	1
purine ribonucleoside triphosphate binding	1
kinase activity	1
phosphotransferase activity, alcohol group as acceptor	1
nucleoside phosphate binding	1
heterocyclic compound binding	1
transferase activity, transferring phosphorus-containing groups	1
catalytic activity	1

Protein interactions and networks

STRING

755 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
IDNK	PGD	P52209	810
IDNK	GCK	P35557	761
IDNK	H6PD	O95479	589
IDNK	G6PD	P11413	557
IDNK	SCP2D1	Q9UJQ7	543
IDNK	PGLS	O95336	540
IDNK	TALDO1	P37837	536
IDNK	RPEL1	Q2QD12	525
IDNK	RBKS	Q9H477	523
IDNK	RPE	Q96AT9	522
IDNK	CD34	P28906	496
IDNK	GPI	P06744	493
IDNK	TKTL1	P51854	487
IDNK	HAO1	Q9UJM8	482
IDNK	MGAT2	Q10469	480

IntAct

0 interactions, top by confidence:

ESM2 similar proteins: A4IH68, A5GFY8, B8A5W4, O34932, O74414, O95396, P23919, P34558, Q03941, Q0P4C4, Q13057, Q16774, Q17CA7, Q1JPA0, Q1LZ78, Q2JUC0, Q32PY9, Q3A3D2, Q3SZ73, Q3ZBS0, Q5KWC4, Q5R9W5, Q5T6J7, Q6AY55, Q7Q732, Q7ZV79, Q7ZW24, Q80UN9, Q8AWD2, Q8BHC4, Q8IQF1, Q8MIR4, Q8N5I4, Q8R0J8, Q8TB37, Q8TC12, Q8WVC6, Q91348, Q91WL8, Q94DR2

Diamond homologs: B0BML1, P39208, P46859, Q03786, Q10242, Q32PY9, Q54PI5, Q5FQ97, Q5T6J7, Q8R0J8, Q9SLE0, A7Z4I0, Q5WGU8, B3EIT1, B3EPX3, B3QMM3, B4S8Z9, P72796, Q2RI74, Q3AR93, Q48FN1, Q4ZQ97, Q82TC0, Q885T2, Q8KCL0, A4VLZ2, Q3KJA2, Q7NH27, C1ASX3, Q3SVM9, Q8RA78

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

53 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	35
Likely benign	6
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1046 predictions. Top by Δscore:

Variant	Effect	Δscore
9:83623219:G:GT	donor_gain	1.0000
9:83623219:G:T	donor_gain	1.0000
9:83623222:G:GG	donor_gain	1.0000
9:83623217:GGGAA:G	donor_gain	0.9900
9:83623218:GGAA:G	donor_gain	0.9900
9:83623218:GGAAG:G	donor_gain	0.9900
9:83623483:G:T	donor_gain	0.9900
9:83628869:A:AG	acceptor_gain	0.9900
9:83628870:A:G	acceptor_gain	0.9900
9:83628870:AAGCT:A	acceptor_gain	0.9900
9:83628871:A:AG	acceptor_gain	0.9900
9:83628871:AGCT:A	acceptor_gain	0.9900
9:83628871:AGCTG:A	acceptor_gain	0.9900
9:83628872:G:GG	acceptor_gain	0.9900
9:83628872:GCT:G	acceptor_gain	0.9900
9:83628872:GCTG:G	acceptor_gain	0.9900
9:83628872:GCTGG:G	acceptor_gain	0.9900
9:83628955:ACCAG:A	donor_loss	0.9900
9:83628956:CCAG:C	donor_loss	0.9900
9:83628957:CAGGT:C	donor_loss	0.9900
9:83628958:AGGT:A	donor_loss	0.9900
9:83628959:GGTAA:G	donor_loss	0.9900
9:83628960:GT:G	donor_loss	0.9900
9:83628961:T:G	donor_loss	0.9900
9:83623219:GAA:G	donor_gain	0.9800
9:83623482:G:GT	donor_gain	0.9800
9:83623486:G:GT	donor_gain	0.9800
9:83623964:C:G	donor_gain	0.9800
9:83628867:TTAAA:T	acceptor_loss	0.9800
9:83628868:TAAA:T	acceptor_loss	0.9800

AlphaMissense

1206 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
9:83623202:G:C	G11R	0.990
9:83643489:A:C	R91S	0.990
9:83643489:A:T	R91S	0.990
9:83623221:A:T	K17I	0.989
9:83641552:G:C	R58P	0.987
9:83628906:C:G	H39D	0.986
9:83643640:T:C	F142L	0.986
9:83643642:T:A	F142L	0.986
9:83643642:T:G	F142L	0.986
9:83628899:T:A	D36E	0.984
9:83628899:T:G	D36E	0.984
9:83641560:T:A	W61R	0.984
9:83641560:T:C	W61R	0.984
9:83628181:A:C	K17N	0.983
9:83628181:A:T	K17N	0.983
9:83623220:A:C	K17Q	0.981
9:83628897:G:C	D36H	0.981
9:83628898:A:T	D36V	0.981
9:83643455:T:A	V80D	0.981
9:83643497:T:C	L94S	0.980
9:83623218:G:A	G16E	0.979
9:83623202:G:T	G11C	0.978
9:83623221:A:C	K17T	0.978
9:83641562:G:C	W61C	0.978
9:83641562:G:T	W61C	0.978
9:83623217:G:T	G16W	0.977
9:83643470:C:A	A85D	0.977
9:83643669:G:C	Q151H	0.977
9:83643669:G:T	Q151H	0.977
9:83623212:G:A	G14D	0.976

dbSNP variants (sampled 300 via entrez): RS1000281322 (9:83640994 G>A), RS1000364827 (9:83641180 G>A,C), RS1000745193 (9:83625306 A>G), RS1000986153 (9:83623609 G>A), RS1001060517 (9:83629716 C>T), RS1001286370 (9:83625288 G>A), RS1001409007 (9:83636467 T>C), RS1001422009 (9:83625027 C>T), RS1002068859 (9:83635969 C>T), RS1002309018 (9:83630106 G>A), RS1002405762 (9:83630839 G>A,C,T), RS1002422950 (9:83623779 C>T), RS1002440824 (9:83630404 C>T), RS1002616371 (9:83624660 G>A,T), RS1002738963 (9:83632187 A>C)

Disease associations

OMIM: gene MIM:611343 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

1 associations (top):

Study	Trait	p-value
GCST010002_322	Refractive error	6.000000e-10

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

34 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Valproic Acid	decreases methylation, decreases expression	4
Air Pollutants	increases abundance, increases expression, affects expression	2
Benzo(a)pyrene	decreases expression, increases methylation	2
Cyclosporine	decreases expression	2
Aflatoxin B1	affects expression, decreases expression	2
methylmercuric chloride	decreases expression	1
methyleugenol	decreases expression	1
triphenyl phosphate	affects expression	1
bisphenol A	decreases expression	1
sodium arsenate	decreases expression, increases abundance	1
decabromobiphenyl ether	affects expression	1
tris(1,3-dichloro-2-propyl)phosphate	decreases expression	1
tobacco tar	increases expression	1
4-aminophenylarsenoxide	affects binding, decreases reaction	1
avobenzone	decreases expression	1
di-n-butylphosphoric acid	affects expression	1
belinostat	decreases expression	1
ICG 001	increases expression	1
MRK 003	decreases expression	1
jinfukang	increases expression	1
Sunitinib	increases expression	1
Arsenic Trioxide	decreases reaction, affects binding	1
Acetaminophen	decreases expression	1
Arsenic	decreases expression, increases abundance	1
Diuron	decreases expression	1
Estradiol	affects cotreatment, decreases expression	1
Ozone	affects expression, increases abundance	1
Silicon Dioxide	decreases expression	1
Tobacco Smoke Pollution	decreases expression	1
Tunicamycin	increases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.