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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

ReactomeiR-HSA-804914. Transport of fatty acids.

Chemistry

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

PharmGKBiPA24900.

Polymorphism and mutation databases

BioMutaiAPOD.
DMDMi114034.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 20201 PublicationAdd
BLAST
Chaini21 – 189169Apolipoprotein DPRO_0000017872Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei21 – 211Pyrrolidone carboxylic acid2 Publications
Disulfide bondi28 ↔ 1341 Publication
Disulfide bondi61 ↔ 1851 Publication
Glycosylationi65 – 651N-linked (GlcNAc...) (complex)4 Publications
Glycosylationi98 – 981N-linked (GlcNAc...) (complex)8 Publications
Disulfide bondi136 – 136Interchain (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

PhosphoSiteiP05090.
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 interactions.
IntActiP05090. 8 interactions.
MINTiMINT-1396020.
STRINGi9606.ENSP00000345179.

Structurei

Secondary structure

1
189
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi24 – 274Combined sources
Helixi39 – 413Combined sources
Beta strandi44 – 518Combined sources
Beta strandi60 – 689Combined sources
Beta strandi74 – 818Combined sources
Beta strandi87 – 9711Combined sources
Beta strandi104 – 1085Combined sources
Beta strandi116 – 1238Combined sources
Beta strandi125 – 13814Combined sources
Beta strandi141 – 15313Combined sources
Helixi157 – 16913Combined sources
Beta strandi183 – 1853Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2APDmodel-A21-189[»]
2HZQX-ray1.80A23-189[»]
2HZRX-ray1.80A23-189[»]
ProteinModelPortaliP05090.
SMRiP05090. Positions 23-188.
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)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti15 – 151F → S.1 Publication
Corresponds to variant rs5952 [ dbSNP | Ensembl ].
VAR_011931
Natural varianti115 – 1151S → L.1 Publication
Corresponds to variant rs5954 [ dbSNP | Ensembl ].
VAR_011932
Natural varianti178 – 1781T → K.1 Publication
Corresponds to variant rs5955 [ dbSNP | Ensembl ].
VAR_011933

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
EntryMethodResolution (Å)ChainPositionsPDBsum
2APDmodel-A21-189[»]
2HZQX-ray1.80A23-189[»]
2HZRX-ray1.80A23-189[»]
ProteinModelPortaliP05090.
SMRiP05090. Positions 23-188.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi106844. 39 interactions.
IntActiP05090. 8 interactions.
MINTiMINT-1396020.
STRINGi9606.ENSP00000345179.

Chemistry

SwissLipidsiSLP:000001524.

PTM databases

PhosphoSiteiP05090.
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.
GeneCardsiAPOD.
HGNCiHGNC:612. APOD.
MIMi107740. gene.
neXtProtiNX_P05090.
PharmGKBiPA24900.
GenAtlasiSearch...

Phylogenomic databases

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

Enzyme and pathway databases

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: September 7, 2016
This is version 185 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.