OBP2B

Summary

OBP2B (odorant binding protein 2B, HGNC:23381) is a protein-coding gene on chromosome 9q34.2, encoding Odorant-binding protein 2b (Q9NPH6). Probably binds and transports small hydrophobic volatile molecules.

Predicted to enable odorant binding activity. Predicted to be involved in chemosensory behavior and sensory perception of smell. Predicted to be located in extracellular region. Predicted to be active in extracellular space.

Source: NCBI Gene 29989 — RefSeq curated summary.

At a glance

• GWAS associations: 10
• Clinical variants (ClinVar): 33 total
• MANE Select transcript: NM_014581

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:23381
Approved symbol	OBP2B
Name	odorant binding protein 2B
Location	9q34.2
Locus type	gene with protein product
Status	Approved
Aliases	hOBPIIb, LCN14
Ensembl gene	ENSG00000171102
Ensembl biotype	protein_coding
OMIM	604606
Entrez	29989

Gene structure

Transcript identifiers

Ensembl transcripts: 5 — 3 protein_coding, 1 protein_coding_CDS_not_defined, 1 nonsense_mediated_decay

ENST00000372034, ENST00000461961, ENST00000473737, ENST00000618116, ENST00000969504

RefSeq mRNA: 2 — MANE Select: NM_014581 NM_001288987, NM_014581

CCDS: CCDS6961

Canonical transcript exons

ENST00000372034 — 7 exons

Exon	Start	End
ENSE00002331069	133208469	133208602
ENSE00003476600	133206315	133206416
ENSE00003551487	133208133	133208203
ENSE00003673574	133205917	133205940
ENSE00003678858	133207226	133207336
ENSE00003737620	133209128	133209250
ENSE00003916817	133205279	133205411

Expression profiles

Bgee: expression breadth broad, 63 present calls, max score 74.06.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
right testis	UBERON:0004534	74.06	gold quality
testis	UBERON:0000473	73.31	gold quality
left testis	UBERON:0004533	73.07	gold quality
right uterine tube	UBERON:0001302	69.83	gold quality
skin of abdomen	UBERON:0001416	68.83	gold quality
skin of leg	UBERON:0001511	68.31	gold quality
zone of skin	UBERON:0000014	68.11	gold quality
thoracic mammary gland	UBERON:0005200	61.00	gold quality
fallopian tube	UBERON:0003889	55.46	gold quality
apex of heart	UBERON:0002098	48.33	gold quality
spleen	UBERON:0002106	46.82	gold quality
heart left ventricle	UBERON:0002084	44.60	gold quality
placenta	UBERON:0001987	43.82	gold quality
duodenum	UBERON:0002114	41.68	gold quality
right ovary	UBERON:0002118	41.63	silver quality
bone marrow cell	CL:0002092	41.19	gold quality
ovary	UBERON:0000992	40.99	gold quality
mucosa of transverse colon	UBERON:0004991	40.81	silver quality
pituitary gland	UBERON:0000007	40.35	gold quality
left ovary	UBERON:0002119	39.99	gold quality
adenohypophysis	UBERON:0002196	39.78	gold quality
lower esophagus mucosa	UBERON:0035834	39.71	gold quality
sural nerve	UBERON:0015488	39.68	gold quality
left uterine tube	UBERON:0001303	38.51	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	38.09	gold quality
colonic epithelium	UBERON:0000397	37.20	gold quality
hindlimb stylopod muscle	UBERON:0004252	36.60	silver quality
ventricular zone	UBERON:0003053	36.48	gold quality
cortical plate	UBERON:0005343	36.47	gold quality
heart	UBERON:0000948	36.02	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	7.47

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

7 targeting OBP2B, 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-6756-5P	99.82	67.97	2466
HSA-MIR-6766-5P	99.68	67.70	2325
HSA-MIR-6510-5P	99.14	66.59	1081
HSA-MIR-760	98.81	66.65	1392
HSA-MIR-4456	97.50	64.88	1678
HSA-MIR-5702	96.68	68.21	958
HSA-MIR-8083	95.93	67.55	694

Literature-anchored findings (GeneRIF, showing 1)

• A cell-specific regulatory region of the human ABO blood group gene regulates the neighborhood gene encoding odorant binding protein 2B. (PMID:33795748)

Cross-species orthologs

9 orthologs

Organism	Symbol	Gene ID
mus_musculus	Lcn4	ENSMUSG00000026919
mus_musculus	Obp2a	ENSMUSG00000062061
mus_musculus	Obp2b	ENSMUSG00000079539
rattus_norvegicus	Lcn4	ENSRNOG00000030708
rattus_norvegicus	Obp2a	ENSRNOG00000042407
rattus_norvegicus	Lcn4l2	ENSRNOG00000043494
rattus_norvegicus	AABR07051244.1	ENSRNOG00000047422
rattus_norvegicus	Obp2b	ENSRNOG00000048417
rattus_norvegicus	Obp2bl1	ENSRNOG00000064942

Paralogs (12): PTGDS (ENSG00000107317), PAEP (ENSG00000122133), OBP2A (ENSG00000122136), LCN2 (ENSG00000148346), LCN9 (ENSG00000148386), LCN1 (ENSG00000160349), LCN15 (ENSG00000177984), LCN12 (ENSG00000184925), LCN10 (ENSG00000187922), LCN8 (ENSG00000204001), LCNL1 (ENSG00000214402), LCN6 (ENSG00000267206)

Protein

Protein identifiers

Odorant-binding protein 2b — Q9NPH6 (reviewed: Q9NPH6)

Alternative names: Odorant-binding protein IIb

All UniProt accessions (1): Q9NPH6

UniProt curated annotations — full annotation on UniProt →

Function. Probably binds and transports small hydrophobic volatile molecules.

Subcellular location. Secreted.

Tissue specificity. Strongly expressed in genital sphere organs such as the prostate and mammary glands.

Similarity. Belongs to the calycin superfamily. Lipocalin family.

Isoforms (3)

UniProt ID	Names	Canonical?
Q9NPH6-1	Ba	yes
Q9NPH6-2	Bb
Q9NPH6-3	Bg

RefSeq proteins (2): NP_001275916, NP_055396* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000566	Lipocln_cytosolic_FA-bd_dom	Domain
IPR002345	Lipocalin	Family
IPR002450	von_Ebner_gland	Family
IPR012674	Calycin	Homologous_superfamily

Pfam: PF00061

UniProt features (6 total): splice variant 2, signal peptide 1, chain 1, disulfide bond 1, sequence variant 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q9NPH6-F1	87.33	0.68

Functional residue map

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

Disulfide bonds (1): 74–166

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 38 (showing top): GOBP_BEHAVIOR, GOBP_SENSORY_PERCEPTION_OF_CHEMICAL_STIMULUS, GOBP_CHEMOSENSORY_BEHAVIOR, GOBP_SENSORY_PERCEPTION, YOSHIMURA_MAPK8_TARGETS_DN, GOMF_ODORANT_BINDING, MARTENS_TRETINOIN_RESPONSE_UP, GOBP_SENSORY_PERCEPTION_OF_SMELL, ZWANG_TRANSIENTLY_UP_BY_2ND_EGF_PULSE_ONLY, SMID_BREAST_CANCER_RELAPSE_IN_BONE_DN, chr9q34, MIR4456, MIR6769B_5P, GSE8685_IL2_ACT_IL2_STARVED_VS_IL21_ACT_IL2_STARVED_CD4_TCELL_DN, GSE14308_TH1_VS_INDUCED_TREG_DN

GO Biological Process (2): sensory perception of smell (GO:0007608), chemosensory behavior (GO:0007635)

GO Molecular Function (2): odorant binding (GO:0005549), small molecule binding (GO:0036094)

GO Cellular Component (2): obsolete extracellular space (GO:0005615), extracellular region (GO:0005576)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
binding	2
sensory perception of chemical stimulus	1
behavior	1
response to chemical	1
cellular anatomical structure	1

Protein interactions and networks

STRING

450 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
OBP2B	KIF22	Q14807	891
OBP2B	APOD	P05090	761
OBP2B	LCN15	Q6UWW0	561
OBP2B	OR1G1	P47890	553
OBP2B	LCN8	Q6JVE9	523
OBP2B	LCN12	Q6JVE5	480
OBP2B	C4orf51	C9J302	478
OBP2B	SURF6	O75683	446
OBP2B	LCN6	P62502	441
OBP2B	LCNL1	Q6ZST4	430
OBP2B	PTGDS	P41222	429
OBP2B	LCN1	P31025	427
OBP2B	LCN9	Q8WX39	419
OBP2B	BPIFB4	P59827	412
OBP2B	CLPSL1	A2RUU4	397

IntAct

3 interactions, top by confidence:

A	B	Type	Score
OBP2A	CLN5	psi-mi:“MI:0914”(association)	0.350
OBP2A	TXNDC15	psi-mi:“MI:0914”(association)	0.350

BioGRID (4): OBP2B (Affinity Capture-MS), OBP2B (Affinity Capture-MS), OBP2B (Positive Genetic), OBP2B (Affinity Capture-MS)

ESM2 similar proteins: B3EY83, B5X0G2, H2B3G5, O02853, O09114, O18873, O97921, P02758, P02761, P04119, P07380, P09466, P11588, P11672, P13613, P19647, P20289, P22057, P30152, P31025, P33685, P33686, P33687, P33688, P41222, P41244, P53715, P62502, P62503, P80188, Q28388, Q29095, Q29487, Q29562, Q5VSP4, Q6JVE6, Q6JVL5, Q6UWW0, Q810Z1, Q8K1H9

Diamond homologs: O18873, P20289, P20462, P31025, P41244, P53715, Q29144, Q5VSP4, Q62471, Q62472, Q8K1H9, Q8SQ30, Q9NPH6, Q9NY56, P02755, P02756, Q8WX39, P07380

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	26
Likely benign	4
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1330 predictions. Top by Δscore:

Variant	Effect	Δscore
9:133206308:T:TA	donor_gain	1.0000
9:133206309:CCTCA:C	donor_loss	1.0000
9:133206310:CTCA:C	donor_loss	1.0000
9:133206311:TCACC:T	donor_loss	1.0000
9:133206312:CA:C	donor_loss	1.0000
9:133206313:A:AC	donor_gain	1.0000
9:133206313:A:AG	donor_loss	1.0000
9:133206313:AC:A	donor_gain	1.0000
9:133206314:C:CC	donor_gain	1.0000
9:133206314:CC:C	donor_gain	1.0000
9:133206314:CCCGT:C	donor_gain	1.0000
9:133207127:T:TA	donor_gain	1.0000
9:133207229:CAAG:C	donor_gain	1.0000
9:133207236:T:A	donor_gain	1.0000
9:133207237:C:A	donor_gain	1.0000
9:133207295:T:TA	donor_gain	1.0000
9:133208131:A:AC	donor_gain	1.0000
9:133208132:C:CC	donor_gain	1.0000
9:133208132:CAGG:C	donor_gain	1.0000
9:133208467:A:AC	donor_gain	1.0000
9:133208468:C:CC	donor_gain	1.0000
9:133209122:G:C	donor_gain	1.0000
9:133209132:T:TA	donor_gain	1.0000
9:133205417:C:CC	acceptor_gain	0.9900
9:133205915:AC:A	donor_gain	0.9900
9:133205916:CC:C	donor_gain	0.9900
9:133205951:C:CT	acceptor_gain	0.9900
9:133205951:C:T	acceptor_gain	0.9900
9:133206341:T:TA	donor_gain	0.9900
9:133206414:TACC:T	acceptor_loss	0.9900

AlphaMissense

1117 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
9:133206376:A:C	F143L	0.936
9:133206376:A:T	F143L	0.936
9:133206378:A:G	F143L	0.936
9:133208477:G:C	F66L	0.917
9:133208477:G:T	F66L	0.917
9:133208479:A:G	F66L	0.917
9:133208485:C:G	A64P	0.894
9:133208471:G:C	F68L	0.888
9:133208471:G:T	F68L	0.888
9:133208473:A:G	F68L	0.888
9:133208578:C:G	A33P	0.860
9:133206331:G:C	F158L	0.858
9:133206331:G:T	F158L	0.858
9:133206333:A:G	F158L	0.858
9:133208590:A:G	W29R	0.846
9:133208590:A:T	W29R	0.846
9:133208588:C:A	W29C	0.842
9:133208588:C:G	W29C	0.842
9:133206377:A:G	F143S	0.841
9:133208168:A:G	M81T	0.810
9:133208189:C:G	C74S	0.809
9:133208190:A:T	C74S	0.809
9:133208142:A:C	Y90D	0.789
9:133208141:T:G	Y90S	0.784
9:133208596:C:A	G27W	0.782
9:133207278:A:C	F112L	0.776
9:133207278:A:T	F112L	0.776
9:133207280:A:G	F112L	0.776
9:133207231:A:T	L128H	0.754
9:133208174:A:G	I79T	0.753

dbSNP variants (sampled 300 via entrez): RS1008060792 (9:133224632 T>A), RS1011542184 (9:133224157 C>T), RS1011968936 (9:133224522 A>C,G), RS1012039592 (9:133224605 T>G), RS1018942397 (9:133224648 C>T), RS1025969614 (9:133224538 C>A), RS1034663244 (9:133224512 T>G), RS1034756749 (9:133224288 T>C), RS1038146338 (9:133224798 G>A,T), RS1038519187 (9:133224611 C>T), RS1039283905 (9:133224131 G>A), RS1051794416 (9:133224094 A>T), RS1052510 (9:133207261 T>C), RS1052512 (9:133207258 T>C,G), RS1052515 (9:133206359 C>A,G,T)

Disease associations

OMIM: gene MIM:604606 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

10 associations (top):

Study	Trait	p-value
GCST001793_1	Coagulation factor levels	4.000000e-34
GCST001793_4	Coagulation factor levels	1.000000e-128
GCST002881_2	ADAMTS13 activity	4.000000e-08
GCST004598_1	vWF levels in ischaemic stroke and hyperhomocysteinaemia	2.000000e-30
GCST005580_281	Intraocular pressure	1.000000e-09
GCST006409_6	Allergic rhinitis	3.000000e-16
GCST010725_19	Malaria	9.000000e-11
GCST010725_31	Malaria	9.000000e-21
GCST010725_98	Malaria	1.000000e-19
GCST012518_1	ABO blood group (A vs O)	1.000000e-54

EFO canonical traits (4, from GWAS)

EFO ID	Trait name
EFO:0006955	ADAMTS13 activity measurement
EFO:0004695	intraocular pressure measurement
EFO:0600060	blood group A
EFO:0600063	blood group O

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

11 total (human), top 11 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
Nickel	decreases expression	2
terbufos	increases methylation	1
Arsenic Trioxide	decreases expression	1
Acetaminophen	increases expression	1
Cadmium	decreases expression, increases abundance	1
Fonofos	increases methylation	1
Methotrexate	increases expression	1
Parathion	increases methylation	1
Valproic Acid	increases methylation	1
Cadmium Chloride	decreases expression, increases abundance	1
Copper Sulfate	increases expression	1

Clinical trials (associated diseases)

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