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Protein

Apolipoprotein D

Gene

APOD

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

APOD occurs in the macromolecular complex with lecithin-cholesterol acyltransferase. It is probably involved in the transport and binding of bilin. Appears to be able to transport a variety of ligands in a number of different contexts.

GO - Molecular functioni

  • cholesterol binding Source: UniProtKB
  • lipid transporter activity Source: UniProtKB

GO - Biological processi

  • aging Source: UniProtKB
  • angiogenesis Source: UniProtKB
  • brain development Source: UniProtKB
  • glucose metabolic process Source: UniProtKB
  • lipid metabolic process Source: UniProtKB
  • negative regulation of cytokine production involved in inflammatory response Source: UniProtKB
  • negative regulation of focal adhesion assembly Source: UniProtKB
  • negative regulation of lipoprotein lipid oxidation Source: UniProtKB
  • negative regulation of monocyte chemotactic protein-1 production Source: UniProtKB
  • negative regulation of platelet-derived growth factor receptor signaling pathway Source: UniProtKB
  • negative regulation of protein import into nucleus Source: UniProtKB
  • negative regulation of smooth muscle cell-matrix adhesion Source: UniProtKB
  • negative regulation of smooth muscle cell proliferation Source: UniProtKB
  • negative regulation of T cell migration Source: UniProtKB
  • peripheral nervous system axon regeneration Source: UniProtKB
  • response to axon injury Source: UniProtKB
  • response to drug Source: UniProtKB
  • response to reactive oxygen species Source: UniProtKB
  • tissue regeneration Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Transport

Keywords - Ligandi

Lipid-binding

Enzyme and pathway databases

BioCyciZFISH:G66-32859-MONOMER.
ReactomeiR-HSA-804914. Transport of fatty acids.

Chemistry databases

SwissLipidsiSLP:000001524.

Names & Taxonomyi

Protein namesi
Recommended name:
Apolipoprotein D
Short name:
Apo-D
Short name:
ApoD
Gene namesi
Name:APOD
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 3

Organism-specific databases

HGNCiHGNC:612. APOD.

Subcellular locationi

GO - Cellular componenti

  • cytosolic ribosome Source: UniProtKB
  • dendrite Source: UniProtKB
  • endoplasmic reticulum Source: UniProtKB
  • extracellular exosome Source: UniProtKB
  • extracellular region Source: UniProtKB
  • extracellular space Source: UniProtKB
  • neuronal cell body Source: UniProtKB
  • perinuclear region of cytoplasm Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi347.
OpenTargetsiENSG00000189058.
PharmGKBiPA24900.

Polymorphism and mutation databases

BioMutaiAPOD.
DMDMi114034.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 201 PublicationAdd BLAST20
ChainiPRO_000001787221 – 189Apolipoprotein DAdd BLAST169

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei21Pyrrolidone carboxylic acid2 Publications1
Disulfide bondi28 ↔ 1341 Publication
Disulfide bondi61 ↔ 1851 Publication
Glycosylationi65N-linked (GlcNAc...) (complex)4 Publications1
Glycosylationi98N-linked (GlcNAc...) (complex)8 Publications1
Disulfide bondi136Interchain (with C-29 in APOA2)1 Publication

Post-translational modificationi

N-glycosylatd. N-glycan heterogeneity at Asn-65: Hex5HexNAc4 (major) and Hex6HexNAc5 (minor); at Asn-98: Hex5HexNAc4 (minor), dHex1Hex5HexNAc4 (major), dHex1Hex6HexNAc5 (minor) and dHex1Hex7HexNAc6 (minor).8 Publications

Keywords - PTMi

Disulfide bond, Glycoprotein, Pyrrolidone carboxylic acid

Proteomic databases

MaxQBiP05090.
PaxDbiP05090.
PeptideAtlasiP05090.
PRIDEiP05090.

2D gel databases

SWISS-2DPAGEP05090.

PTM databases

PhosphoSitePlusiP05090.
UniCarbKBiP05090.

Expressioni

Tissue specificityi

Expressed in liver, intestine, pancreas, kidney, placenta, adrenal, spleen, fetal brain tissue and tears.

Gene expression databases

BgeeiENSG00000189058.
CleanExiHS_APOD.
ExpressionAtlasiP05090. baseline and differential.
GenevisibleiP05090. HS.

Interactioni

Subunit structurei

Homodimer. In plasma, also exists as a disulfide-linked heterodimer with APOA2.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
A8KA833EBI-715495,EBI-10174961

Protein-protein interaction databases

BioGridi106844. 39 interactors.
IntActiP05090. 13 interactors.
MINTiMINT-1396020.
STRINGi9606.ENSP00000345179.

Structurei

Secondary structure

1189
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi24 – 27Combined sources4
Helixi39 – 41Combined sources3
Beta strandi44 – 51Combined sources8
Beta strandi60 – 68Combined sources9
Beta strandi74 – 81Combined sources8
Beta strandi87 – 97Combined sources11
Beta strandi104 – 108Combined sources5
Beta strandi116 – 123Combined sources8
Beta strandi125 – 138Combined sources14
Beta strandi141 – 153Combined sources13
Helixi157 – 169Combined sources13
Beta strandi183 – 185Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2APDmodel-A21-189[»]
2HZQX-ray1.80A23-189[»]
2HZRX-ray1.80A23-189[»]
ProteinModelPortaliP05090.
SMRiP05090.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP05090.

Family & Domainsi

Sequence similaritiesi

Belongs to the calycin superfamily. Lipocalin family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiKOG4824. Eukaryota.
COG3040. LUCA.
GeneTreeiENSGT00510000046981.
HOGENOMiHOG000061525.
HOVERGENiHBG018734.
InParanoidiP05090.
KOiK03098.
PhylomeDBiP05090.
TreeFamiTF324836.

Family and domain databases

Gene3Di2.40.128.20. 1 hit.
InterProiIPR026222. ApoD_vertbrte.
IPR002969. ApolipopD.
IPR012674. Calycin.
IPR011038. Calycin-like.
IPR002345. Lipocalin.
IPR022271. Lipocalin_ApoD.
IPR022272. Lipocalin_CS.
IPR000566. Lipocln_cytosolic_FA-bd_dom.
[Graphical view]
PfamiPF08212. Lipocalin_2. 1 hit.
[Graphical view]
PIRSFiPIRSF036893. Lipocalin_ApoD. 1 hit.
PRINTSiPR02058. APODVERTBRTE.
PR01219. APOLIPOPROTD.
PR00179. LIPOCALIN.
SUPFAMiSSF50814. SSF50814. 1 hit.
PROSITEiPS00213. LIPOCALIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P05090-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVMLLLLLSA LAGLFGAAEG QAFHLGKCPN PPVQENFDVN KYLGRWYEIE
60 70 80 90 100
KIPTTFENGR CIQANYSLME NGKIKVLNQE LRADGTVNQI EGEATPVNLT
110 120 130 140 150
EPAKLEVKFS WFMPSAPYWI LATDYENYAL VYSCTCIIQL FHVDFAWILA
160 170 180
RNPNLPPETV DSLKNILTSN NIDVKKMTVT DQVNCPKLS
Length:189
Mass (Da):21,276
Last modified:August 13, 1987 - v1
Checksum:i0EAA6DE03D5E71A8
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_01193115F → S.1 PublicationCorresponds to variant rs5952dbSNPEnsembl.1
Natural variantiVAR_011932115S → L.1 PublicationCorresponds to variant rs5954dbSNPEnsembl.1
Natural variantiVAR_011933178T → K.1 PublicationCorresponds to variant rs5955dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02611 mRNA. Translation: AAB59517.1.
M16696 Genomic DNA. Translation: AAA51764.1.
BT019860 mRNA. Translation: AAV38663.1.
BT019861 mRNA. Translation: AAV38664.1.
CR456838 mRNA. Translation: CAG33119.1.
CR541773 mRNA. Translation: CAG46572.1.
AK312090 mRNA. Translation: BAG35026.1.
CH471052 Genomic DNA. Translation: EAW78023.1.
CH471052 Genomic DNA. Translation: EAW78024.1.
BC007402 mRNA. Translation: AAH07402.1.
S80440 mRNA. Translation: AAB35919.1.
CCDSiCCDS33925.1.
PIRiA26958. LPHUD.
RefSeqiNP_001638.1. NM_001647.3.
UniGeneiHs.522555.

Genome annotation databases

EnsembliENST00000343267; ENSP00000345179; ENSG00000189058.
GeneIDi347.
KEGGihsa:347.
UCSCiuc003fur.2. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02611 mRNA. Translation: AAB59517.1.
M16696 Genomic DNA. Translation: AAA51764.1.
BT019860 mRNA. Translation: AAV38663.1.
BT019861 mRNA. Translation: AAV38664.1.
CR456838 mRNA. Translation: CAG33119.1.
CR541773 mRNA. Translation: CAG46572.1.
AK312090 mRNA. Translation: BAG35026.1.
CH471052 Genomic DNA. Translation: EAW78023.1.
CH471052 Genomic DNA. Translation: EAW78024.1.
BC007402 mRNA. Translation: AAH07402.1.
S80440 mRNA. Translation: AAB35919.1.
CCDSiCCDS33925.1.
PIRiA26958. LPHUD.
RefSeqiNP_001638.1. NM_001647.3.
UniGeneiHs.522555.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2APDmodel-A21-189[»]
2HZQX-ray1.80A23-189[»]
2HZRX-ray1.80A23-189[»]
ProteinModelPortaliP05090.
SMRiP05090.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi106844. 39 interactors.
IntActiP05090. 13 interactors.
MINTiMINT-1396020.
STRINGi9606.ENSP00000345179.

Chemistry databases

SwissLipidsiSLP:000001524.

PTM databases

PhosphoSitePlusiP05090.
UniCarbKBiP05090.

Polymorphism and mutation databases

BioMutaiAPOD.
DMDMi114034.

2D gel databases

SWISS-2DPAGEP05090.

Proteomic databases

MaxQBiP05090.
PaxDbiP05090.
PeptideAtlasiP05090.
PRIDEiP05090.

Protocols and materials databases

DNASUi347.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000343267; ENSP00000345179; ENSG00000189058.
GeneIDi347.
KEGGihsa:347.
UCSCiuc003fur.2. human.

Organism-specific databases

CTDi347.
DisGeNETi347.
GeneCardsiAPOD.
HGNCiHGNC:612. APOD.
MIMi107740. gene.
neXtProtiNX_P05090.
OpenTargetsiENSG00000189058.
PharmGKBiPA24900.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG4824. Eukaryota.
COG3040. LUCA.
GeneTreeiENSGT00510000046981.
HOGENOMiHOG000061525.
HOVERGENiHBG018734.
InParanoidiP05090.
KOiK03098.
PhylomeDBiP05090.
TreeFamiTF324836.

Enzyme and pathway databases

BioCyciZFISH:G66-32859-MONOMER.
ReactomeiR-HSA-804914. Transport of fatty acids.

Miscellaneous databases

ChiTaRSiAPOD. human.
EvolutionaryTraceiP05090.
GeneWikiiApolipoprotein_D.
GenomeRNAii347.
PROiP05090.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000189058.
CleanExiHS_APOD.
ExpressionAtlasiP05090. baseline and differential.
GenevisibleiP05090. HS.

Family and domain databases

Gene3Di2.40.128.20. 1 hit.
InterProiIPR026222. ApoD_vertbrte.
IPR002969. ApolipopD.
IPR012674. Calycin.
IPR011038. Calycin-like.
IPR002345. Lipocalin.
IPR022271. Lipocalin_ApoD.
IPR022272. Lipocalin_CS.
IPR000566. Lipocln_cytosolic_FA-bd_dom.
[Graphical view]
PfamiPF08212. Lipocalin_2. 1 hit.
[Graphical view]
PIRSFiPIRSF036893. Lipocalin_ApoD. 1 hit.
PRINTSiPR02058. APODVERTBRTE.
PR01219. APOLIPOPROTD.
PR00179. LIPOCALIN.
SUPFAMiSSF50814. SSF50814. 1 hit.
PROSITEiPS00213. LIPOCALIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiAPOD_HUMAN
AccessioniPrimary (citable) accession number: P05090
Secondary accession number(s): B2R579, D3DNW6, Q6IBG6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: August 13, 1987
Last modified: November 30, 2016
This is version 187 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Miscellaneous

APOD is primarily localized in HDL (60-65%), with most of the remainder in VHDL and only trace amounts in VLDL and LDL.

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 3
    Human chromosome 3: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.