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Protein

Pigment epithelium-derived factor

Gene

Serpinf1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Neurotrophic protein; induces extensive neuronal differentiation in retinoblastoma cells. Potent inhibitor of angiogenesis. As it does not undergo the S (stressed) to R (relaxed) conformational transition characteristic of active serpins, it exhibits no serine protease inhibitory activity.1 Publication

GO - Molecular functioni

  1. serine-type endopeptidase inhibitor activity Source: GO_Central

GO - Biological processi

  1. aging Source: Ensembl
  2. cellular response to cobalt ion Source: Ensembl
  3. cellular response to dexamethasone stimulus Source: Ensembl
  4. cellular response to glucose stimulus Source: Ensembl
  5. cellular response to retinoic acid Source: Ensembl
  6. kidney development Source: Ensembl
  7. negative regulation of angiogenesis Source: UniProtKB
  8. negative regulation of endopeptidase activity Source: GO_Central
  9. negative regulation of endothelial cell migration Source: Ensembl
  10. negative regulation of epithelial cell proliferation involved in prostate gland development Source: MGI
  11. negative regulation of inflammatory response Source: Ensembl
  12. negative regulation of neuron death Source: Ensembl
  13. ovulation cycle Source: Ensembl
  14. positive regulation of neurogenesis Source: UniProtKB
  15. positive regulation of neuron projection development Source: Ensembl
  16. regulation of proteolysis Source: GO_Central
  17. response to acidic pH Source: Ensembl
  18. response to arsenic-containing substance Source: Ensembl
  19. retina development in camera-type eye Source: Ensembl
  20. short-term memory Source: Ensembl
Complete GO annotation...

Protein family/group databases

MEROPSiI04.979.

Names & Taxonomyi

Protein namesi
Recommended name:
Pigment epithelium-derived factor
Short name:
PEDF
Alternative name(s):
Caspin
Serpin F1
Stromal cell-derived factor 3
Short name:
SDF-3
Gene namesi
Name:Serpinf1
Synonyms:Pedf, Sdf3
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589: Chromosome 11

Organism-specific databases

MGIiMGI:108080. Serpinf1.

Subcellular locationi

Secreted. Melanosome By similarity

GO - Cellular componenti

  1. axon hillock Source: Ensembl
  2. basement membrane Source: Ensembl
  3. extracellular region Source: UniProtKB
  4. extracellular space Source: MGI
  5. extracellular vesicular exosome Source: MGI
  6. melanosome Source: UniProtKB-SubCell
  7. perinuclear region of cytoplasm Source: Ensembl
Complete GO annotation...

Keywords - Cellular componenti

Secreted

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 1919By similarityAdd
BLAST
Chaini20 – 417398Pigment epithelium-derived factorPRO_0000032509Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei20 – 201Pyrrolidone carboxylic acidBy similarity
Modified residuei24 – 241PhosphoserineBy similarity
Glycosylationi284 – 2841N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Glycoprotein, Phosphoprotein, Pyrrolidone carboxylic acid

Proteomic databases

MaxQBiP97298.
PaxDbiP97298.
PRIDEiP97298.

PTM databases

PhosphoSiteiP97298.

Expressioni

Tissue specificityi

Highly expressed in the liver, gastric glandular mucosa and renal tubules. It is also expressed in the brain, heart, lung retina and testes.2 Publications

Developmental stagei

First detected at 12.5 dpc in cartilage primordium, it is present in the osseous matrix of developing limbs, vertebrae, ribs and skull. At 16.5 dpc it is detected in bone matrix and smooth muscle, and at lower levels in connective tissue, bronchial epithelial cells, metanephron microtubules, and skin.1 Publication

Gene expression databases

BgeeiP97298.
ExpressionAtlasiP97298. baseline and differential.
GenevestigatoriP97298.

Structurei

3D structure databases

ProteinModelPortaliP97298.
SMRiP97298. Positions 35-414.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the serpin family.Curated

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiCOG4826.
GeneTreeiENSGT00770000120524.
HOGENOMiHOG000115489.
HOVERGENiHBG106911.
InParanoidiP97298.
OMAiLNCKIAQ.
OrthoDBiEOG7K3TMD.
PhylomeDBiP97298.
TreeFamiTF317350.

Family and domain databases

InterProiIPR023795. Serpin_CS.
IPR023796. Serpin_dom.
IPR000215. Serpin_fam.
[Graphical view]
PANTHERiPTHR11461. PTHR11461. 1 hit.
PfamiPF00079. Serpin. 1 hit.
[Graphical view]
SMARTiSM00093. SERPIN. 1 hit.
[Graphical view]
SUPFAMiSSF56574. SSF56574. 1 hit.
PROSITEiPS00284. SERPIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P97298-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MQALVLLLWT GALLGHGSSQ NVPSSSEGSP VPDSTGEPVE EEDPFFKVPV
60 70 80 90 100
NKLAAAVSNF GYDLYRLRSS ASPTGNVLLS PLSVATALSA LSLGAEHRTE
110 120 130 140 150
SVIHRALYYD LITNPDIHST YKELLASVTA PEKNLKSASR IVFERKLRVK
160 170 180 190 200
SSFVAPLEKS YGTRPRILTG NPRVDLQEIN NWVQAQMKGK IARSTREMPS
210 220 230 240 250
ALSILLLGVA YFKGQWVTKF DSRKTTLQDF HLDEDRTVRV PMMSDPKAIL
260 270 280 290 300
RYGLDSDLNC KIAQLPLTGS MSIIFFLPLT VTQNLTMIEE SLTSEFIHDI
310 320 330 340 350
DRELKTIQAV LTVPKLKLSF EGELTKSLQD MKLQSLFESP DFSKITGKPV
360 370 380 390 400
KLTQVEHRAA FEWNEEGAGS SPSPGLQPVR LTFPLDYHLN QPFLFVLRDT
410
DTGALLFIGR ILDPSST
Length:417
Mass (Da):46,234
Last modified:March 29, 2004 - v2
Checksum:iECD360FE6AA74D25
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti70 – 701S → G in AAC69271. 1 PublicationCurated
Sequence conflicti136 – 1361K → N in BAA31978. (PubMed:9614124)Curated
Sequence conflicti137 – 1371S → R in AAC69271. 1 PublicationCurated
Sequence conflicti280 – 2801T → A in BAA09051. (PubMed:8938438)Curated
Sequence conflicti377 – 3771Q → L in AAC69271. 1 PublicationCurated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50460 mRNA. Translation: BAA09051.1.
AF036164 mRNA. Translation: AAC69271.1.
D87975 mRNA. Translation: BAA31978.1.
AF017055
, AF017051, AF017052, AF017053, AF017054 Genomic DNA. Translation: AAC05733.1.
AF017057 mRNA. Translation: AAC05731.1.
BC019852 mRNA. Translation: AAH19852.1.
CCDSiCCDS25045.1.
RefSeqiNP_035470.3. NM_011340.3.
UniGeneiMm.2044.

Genome annotation databases

EnsembliENSMUST00000000769; ENSMUSP00000000769; ENSMUSG00000000753.
GeneIDi20317.
KEGGimmu:20317.
UCSCiuc007kdp.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50460 mRNA. Translation: BAA09051.1.
AF036164 mRNA. Translation: AAC69271.1.
D87975 mRNA. Translation: BAA31978.1.
AF017055
, AF017051, AF017052, AF017053, AF017054 Genomic DNA. Translation: AAC05733.1.
AF017057 mRNA. Translation: AAC05731.1.
BC019852 mRNA. Translation: AAH19852.1.
CCDSiCCDS25045.1.
RefSeqiNP_035470.3. NM_011340.3.
UniGeneiMm.2044.

3D structure databases

ProteinModelPortaliP97298.
SMRiP97298. Positions 35-414.
ModBaseiSearch...
MobiDBiSearch...

Protein family/group databases

MEROPSiI04.979.

PTM databases

PhosphoSiteiP97298.

Proteomic databases

MaxQBiP97298.
PaxDbiP97298.
PRIDEiP97298.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000000769; ENSMUSP00000000769; ENSMUSG00000000753.
GeneIDi20317.
KEGGimmu:20317.
UCSCiuc007kdp.1. mouse.

Organism-specific databases

CTDi5176.
MGIiMGI:108080. Serpinf1.

Phylogenomic databases

eggNOGiCOG4826.
GeneTreeiENSGT00770000120524.
HOGENOMiHOG000115489.
HOVERGENiHBG106911.
InParanoidiP97298.
OMAiLNCKIAQ.
OrthoDBiEOG7K3TMD.
PhylomeDBiP97298.
TreeFamiTF317350.

Miscellaneous databases

NextBioi298103.
PROiP97298.
SOURCEiSearch...

Gene expression databases

BgeeiP97298.
ExpressionAtlasiP97298. baseline and differential.
GenevestigatoriP97298.

Family and domain databases

InterProiIPR023795. Serpin_CS.
IPR023796. Serpin_dom.
IPR000215. Serpin_fam.
[Graphical view]
PANTHERiPTHR11461. PTHR11461. 1 hit.
PfamiPF00079. Serpin. 1 hit.
[Graphical view]
SMARTiSM00093. SERPIN. 1 hit.
[Graphical view]
SUPFAMiSSF56574. SSF56574. 1 hit.
PROSITEiPS00284. SERPIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of novel secreted and membrane proteins isolated by the signal sequence trap method."
    Shirozu M., Tada H., Tashiro K., Nakamura T., Lopez N.D., Nazarea M., Hamada T., Sato T., Nakano T., Honjo T.
    Genomics 37:273-280(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "Isolation, purification and characterization of a collagen-associated serpin, caspin, produced by murine colon adenocarcinoma cells."
    Kozaki K., Miyaishi O., Koiwai O., Yasui Y., Kashiwai A., Nishikawa Y., Shimizu S., Saga S.
    J. Biol. Chem. 273:15125-15130(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 53-66; 252-261; 333-344 AND 359-372, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
    Strain: BALB/c.
    Tissue: Liver.
  3. "Structural and comparative analysis of the mouse gene for pigment epithelium-derived factor (PEDF)."
    Singh V.K., Chader G.J., Rodriguez I.R.
    Mol. Vis. 4:7-7(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
    Strain: FVB/N.
    Tissue: Liver.
  4. Tombran-Tink J.
    Submitted (OCT-1998) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE.
    Strain: BALB/c.
  5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: FVB/N.
    Tissue: Liver.
  6. "Wilms' tumor growth is suppressed by antiangiogenic pigment epithelium-derived factor in a xenograft model."
    Abramson L.P., Stellmach V., Doll J.A., Cornwell M., Arensman R.M., Crawford S.E.
    J. Pediatr. Surg. 38:336-342(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiPEDF_MOUSE
AccessioniPrimary (citable) accession number: P97298
Secondary accession number(s): O70629, O88691
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: March 29, 2004
Last modified: February 4, 2015
This is version 115 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.