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Protein

Platelet-activating factor receptor

Gene

PTAFR

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

Functioni

Receptor for platelet activating factor, a chemotactic phospholipid mediator that possesses potent inflammatory, smooth-muscle contractile and hypotensive activity. Seems to mediate its action via a G protein that activates a phosphatidylinositol-calcium second messenger system.4 Publications

GO - Molecular functioni

  1. G-protein coupled purinergic nucleotide receptor activity Source: GO_Central
  2. G-protein coupled receptor activity Source: ProtInc
  3. lipopolysaccharide binding Source: Ensembl
  4. lipopolysaccharide receptor activity Source: Ensembl
  5. phospholipid binding Source: UniProtKB
  6. platelet activating factor receptor activity Source: UniProtKB

GO - Biological processi

  1. chemotaxis Source: ProtInc
  2. cytokine-mediated signaling pathway Source: Reactome
  3. cytokine production Source: Ensembl
  4. G-protein coupled purinergic nucleotide receptor signaling pathway Source: GOC
  5. G-protein coupled receptor signaling pathway Source: UniProtKB
  6. immune response Source: ProtInc
  7. inflammatory response Source: ProtInc
  8. inositol trisphosphate biosynthetic process Source: Ensembl
  9. interferon-gamma-mediated signaling pathway Source: Reactome
  10. phosphatidylinositol-mediated signaling Source: UniProtKB
Complete GO annotation...

Keywords - Molecular functioni

G-protein coupled receptor, Receptor, Transducer

Keywords - Biological processi

Chemotaxis

Enzyme and pathway databases

ReactomeiREACT_14828. Class A/1 (Rhodopsin-like receptors).
REACT_18283. G alpha (q) signalling events.
REACT_25078. Interferon gamma signaling.

Protein family/group databases

TCDBi9.A.14.13.3. the g-protein-coupled receptor (gpcr) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Platelet-activating factor receptor
Short name:
PAF-R
Short name:
PAFr
Gene namesi
Name:PTAFR
Synonyms:PAFR
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 1

Organism-specific databases

HGNCiHGNC:9582. PTAFR.

Subcellular locationi

Cell membrane 1 Publication; Multi-pass membrane protein 1 Publication

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 1616ExtracellularSequence AnalysisAdd
BLAST
Transmembranei17 – 3822Helical; Name=1Sequence AnalysisAdd
BLAST
Topological domaini39 – 5416CytoplasmicSequence AnalysisAdd
BLAST
Transmembranei55 – 7420Helical; Name=2Sequence AnalysisAdd
BLAST
Topological domaini75 – 9117ExtracellularSequence AnalysisAdd
BLAST
Transmembranei92 – 11322Helical; Name=3Sequence AnalysisAdd
BLAST
Topological domaini114 – 13320CytoplasmicSequence AnalysisAdd
BLAST
Transmembranei134 – 15522Helical; Name=4Sequence AnalysisAdd
BLAST
Topological domaini156 – 18429ExtracellularSequence AnalysisAdd
BLAST
Transmembranei185 – 20521Helical; Name=5Sequence AnalysisAdd
BLAST
Topological domaini206 – 23328CytoplasmicSequence AnalysisAdd
BLAST
Transmembranei234 – 25421Helical; Name=6Sequence AnalysisAdd
BLAST
Topological domaini255 – 27622ExtracellularSequence AnalysisAdd
BLAST
Transmembranei277 – 29620Helical; Name=7Sequence AnalysisAdd
BLAST
Topological domaini297 – 34246CytoplasmicSequence AnalysisAdd
BLAST

GO - Cellular componenti

  1. integral component of membrane Source: UniProtKB
  2. integral component of plasma membrane Source: ProtInc
  3. intracellular membrane-bounded organelle Source: HPA
  4. membrane Source: UniProtKB
  5. nucleoplasm Source: HPA
  6. plasma membrane Source: HPA
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA33933.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 342342Platelet-activating factor receptorPRO_0000070092Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi90 ↔ 173PROSITE-ProRule annotation
Glycosylationi169 – 1691N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PRIDEiP25105.

PTM databases

PhosphoSiteiP25105.

Expressioni

Tissue specificityi

Expressed in the placenta, lung, left and right heart ventricles, heart atrium, leukocytes and differentiated HL-60 granulocytes.3 Publications

Inductioni

By CSF2/GM-CSF, IL5/interleukin-5 and n-butyrate.1 Publication

Gene expression databases

BgeeiP25105.
CleanExiHS_PTAFR.
GenevestigatoriP25105.

Organism-specific databases

HPAiHPA027543.

Interactioni

Subunit structurei

Interacts with ARRB1.1 Publication

Protein-protein interaction databases

BioGridi111696. 12 interactions.
IntActiP25105. 4 interactions.
STRINGi9606.ENSP00000301974.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2B0Xmodel-A1-342[»]
ProteinModelPortaliP25105.
SMRiP25105. Positions 6-304.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the G-protein coupled receptor 1 family.PROSITE-ProRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiNOG149133.
GeneTreeiENSGT00760000118784.
HOGENOMiHOG000013041.
HOVERGENiHBG101106.
InParanoidiP25105.
KOiK04279.
OMAiFLCNLAG.
OrthoDBiEOG7QVM3C.
PhylomeDBiP25105.
TreeFamiTF350009.

Family and domain databases

InterProiIPR000276. GPCR_Rhodpsn.
IPR017452. GPCR_Rhodpsn_7TM.
IPR002282. PAF_rcpt.
[Graphical view]
PfamiPF00001. 7tm_1. 1 hit.
[Graphical view]
PRINTSiPR00237. GPCRRHODOPSN.
PR01153. PAFRECEPTOR.
PROSITEiPS00237. G_PROTEIN_RECEP_F1_1. 1 hit.
PS50262. G_PROTEIN_RECEP_F1_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P25105-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MEPHDSSHMD SEFRYTLFPI VYSIIFVLGV IANGYVLWVF ARLYPCKKFN
60 70 80 90 100
EIKIFMVNLT MADMLFLITL PLWIVYYQNQ GNWILPKFLC NVAGCLFFIN
110 120 130 140 150
TYCSVAFLGV ITYNRFQAVT RPIKTAQANT RKRGISLSLV IWVAIVGAAS
160 170 180 190 200
YFLILDSTNT VPDSAGSGNV TRCFEHYEKG SVPVLIIHIF IVFSFFLVFL
210 220 230 240 250
IILFCNLVII RTLLMQPVQQ QRNAEVKRRA LWMVCTVLAV FIICFVPHHV
260 270 280 290 300
VQLPWTLAEL GFQDSKFHQA INDAHQVTLC LLSTNCVLDP VIYCFLTKKF
310 320 330 340
RKHLTEKFYS MRSSRKCSRA TTDTVTEVVV PFNQIPGNSL KN
Length:342
Mass (Da):39,203
Last modified:May 1, 1992 - v1
Checksum:i890073C9EBA79228
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti28 – 281L → P in AAA60108 (Ref. 6) Curated
Sequence conflicti66 – 661F → L in AAA60108 (Ref. 6) Curated
Sequence conflicti95 – 951C → R in AAA60108 (Ref. 6) Curated
Sequence conflicti227 – 2282KR → TG in AAA60214 (PubMed:1322356).Curated
Sequence conflicti227 – 2282KR → TT in AAA60108 (Ref. 6) Curated
Sequence conflicti247 – 2471P → A in AAA60108 (Ref. 6) Curated
Sequence conflicti316 – 3161K → N in AAB24695 (PubMed:1281995).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti224 – 2241A → D.1 Publication
Corresponds to variant rs5938 [ dbSNP | Ensembl ].
VAR_011851
Natural varianti338 – 3381N → S.1 Publication
Corresponds to variant rs5939 [ dbSNP | Ensembl ].
VAR_011852

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M80436 mRNA. Translation: AAA60001.1.
D10202 mRNA. Translation: BAA01050.1.
M76674 mRNA. Translation: AAA60002.1.
M88177 Genomic DNA. Translation: AAA60214.1.
S52624 mRNA. Translation: AAB24695.2.
L07334 mRNA. Translation: AAA60108.1.
S56396 Genomic DNA. Translation: AAB25755.1.
AY275466 mRNA. Translation: AAP32298.1.
BT009801 mRNA. Translation: AAP88803.1.
AK290240 mRNA. Translation: BAF82929.1.
CH471059 Genomic DNA. Translation: EAX07711.1.
BC013816 mRNA. Translation: AAH13816.1.
BC063000 mRNA. Translation: AAH63000.1.
CCDSiCCDS318.1.
PIRiA40191.
RefSeqiNP_000943.1. NM_000952.4.
NP_001158193.1. NM_001164721.1.
NP_001158194.1. NM_001164722.2.
NP_001158195.1. NM_001164723.2.
UniGeneiHs.77542.

Genome annotation databases

EnsembliENST00000305392; ENSP00000301974; ENSG00000169403.
ENST00000373857; ENSP00000362965; ENSG00000169403.
ENST00000539896; ENSP00000442658; ENSG00000169403.
GeneIDi5724.
KEGGihsa:5724.
UCSCiuc001bpl.3. human.

Polymorphism databases

DMDMi129557.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M80436 mRNA. Translation: AAA60001.1.
D10202 mRNA. Translation: BAA01050.1.
M76674 mRNA. Translation: AAA60002.1.
M88177 Genomic DNA. Translation: AAA60214.1.
S52624 mRNA. Translation: AAB24695.2.
L07334 mRNA. Translation: AAA60108.1.
S56396 Genomic DNA. Translation: AAB25755.1.
AY275466 mRNA. Translation: AAP32298.1.
BT009801 mRNA. Translation: AAP88803.1.
AK290240 mRNA. Translation: BAF82929.1.
CH471059 Genomic DNA. Translation: EAX07711.1.
BC013816 mRNA. Translation: AAH13816.1.
BC063000 mRNA. Translation: AAH63000.1.
CCDSiCCDS318.1.
PIRiA40191.
RefSeqiNP_000943.1. NM_000952.4.
NP_001158193.1. NM_001164721.1.
NP_001158194.1. NM_001164722.2.
NP_001158195.1. NM_001164723.2.
UniGeneiHs.77542.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2B0Xmodel-A1-342[»]
ProteinModelPortaliP25105.
SMRiP25105. Positions 6-304.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi111696. 12 interactions.
IntActiP25105. 4 interactions.
STRINGi9606.ENSP00000301974.

Chemistry

BindingDBiP25105.
ChEMBLiCHEMBL250.
GuidetoPHARMACOLOGYi334.

Protein family/group databases

TCDBi9.A.14.13.3. the g-protein-coupled receptor (gpcr) family.
GPCRDBiSearch...

PTM databases

PhosphoSiteiP25105.

Polymorphism databases

DMDMi129557.

Proteomic databases

PRIDEiP25105.

Protocols and materials databases

DNASUi5724.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000305392; ENSP00000301974; ENSG00000169403.
ENST00000373857; ENSP00000362965; ENSG00000169403.
ENST00000539896; ENSP00000442658; ENSG00000169403.
GeneIDi5724.
KEGGihsa:5724.
UCSCiuc001bpl.3. human.

Organism-specific databases

CTDi5724.
GeneCardsiGC01M028473.
HGNCiHGNC:9582. PTAFR.
HPAiHPA027543.
MIMi173393. gene.
neXtProtiNX_P25105.
PharmGKBiPA33933.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG149133.
GeneTreeiENSGT00760000118784.
HOGENOMiHOG000013041.
HOVERGENiHBG101106.
InParanoidiP25105.
KOiK04279.
OMAiFLCNLAG.
OrthoDBiEOG7QVM3C.
PhylomeDBiP25105.
TreeFamiTF350009.

Enzyme and pathway databases

ReactomeiREACT_14828. Class A/1 (Rhodopsin-like receptors).
REACT_18283. G alpha (q) signalling events.
REACT_25078. Interferon gamma signaling.

Miscellaneous databases

GeneWikiiPlatelet-activating_factor_receptor.
GenomeRNAii5724.
NextBioi22248.
PROiP25105.
SOURCEiSearch...

Gene expression databases

BgeeiP25105.
CleanExiHS_PTAFR.
GenevestigatoriP25105.

Family and domain databases

InterProiIPR000276. GPCR_Rhodpsn.
IPR017452. GPCR_Rhodpsn_7TM.
IPR002282. PAF_rcpt.
[Graphical view]
PfamiPF00001. 7tm_1. 1 hit.
[Graphical view]
PRINTSiPR00237. GPCRRHODOPSN.
PR01153. PAFRECEPTOR.
PROSITEiPS00237. G_PROTEIN_RECEP_F1_1. 1 hit.
PS50262. G_PROTEIN_RECEP_F1_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of a human cDNA that encodes a functional receptor for platelet activating factor."
    Ye R.D., Prossnitz E.R., Zou A., Cochrane C.G.
    Biochem. Biophys. Res. Commun. 180:105-111(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY.
    Tissue: Granulocyte.
  2. "Molecular cloning and expression of platelet-activating factor receptor from human leukocytes."
    Nakamura M., Honda Z., Izumi T., Sakanaka C., Mutoh H., Minami M., Bito H., Seyama Y., Matsumoto T., Noma M., Shimizu T.
    J. Biol. Chem. 266:20400-20405(1990) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY, INDUCTION.
    Tissue: Leukocyte.
  3. "The human leukocyte platelet-activating factor receptor. cDNA cloning, cell surface expression, and construction of a novel epitope-bearing analog."
    Kunz D., Gerard N.P., Gerard C.
    J. Biol. Chem. 267:9101-9106(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, SUBCELLULAR LOCATION.
    Tissue: Leukocyte.
  4. "The human platelet-activating factor receptor gene (PTAFR) contains no introns and maps to chromosome 1."
    Seyfried C.E., Schweickart V.L., Godiska R., Gray P.W.
    Genomics 13:832-834(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Tissue: Fetal liver.
  5. "Molecular cloning and characterization of the platelet-activating factor receptor gene expressed in the human heart."
    Sugimoto T., Tsuchimochi H., McGregor C.G.A., Mutoh H., Shimizu T., Kurachi Y.
    Biochem. Biophys. Res. Commun. 189:617-624(1991) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, TISSUE SPECIFICITY.
    Tissue: Heart ventricle.
  6. "Nucleotide sequence of platelet-activating-factor receptor derived from HeLa cell genomic DNA and Rhesus monkey genomic DNA."
    Behal R.H., Debuysere M.S., Olson M.S.
    Submitted (NOV-1992) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Cervix carcinoma.
  7. "Cloning of a human platelet-activating factor receptor gene: evidence for an intron in the 5'-untranslated region."
    Chase P.B., Halonen M., Regan J.W.
    Am. J. Respir. Cell Mol. Biol. 8:240-244(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  8. "cDNA clones of human proteins involved in signal transduction sequenced by the Guthrie cDNA resource center (www.cdna.org)."
    Warren C.N., Aronstam R.S., Sharma S.V.
    Submitted (MAR-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Placenta.
  9. "Cloning of human full-length CDSs in BD Creator(TM) system donor vector."
    Kalnine N., Chen X., Rolfs A., Halleck A., Hines L., Eisenstein S., Koundinya M., Raphael J., Moreira D., Kelley T., LaBaer J., Lin Y., Phelan M., Farmer A.
    Submitted (JUL-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  10. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Umbilical cord blood.
  11. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  12. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Brain and Lymph.
  13. "Platelet-activating factor-induced clathrin-mediated endocytosis requires beta-arrestin-1 recruitment and activation of the p38 MAPK signalosome at the plasma membrane for actin bundle formation."
    McLaughlin N.J., Banerjee A., Kelher M.R., Gamboni-Robertson F., Hamiel C., Sheppard F.R., Moore E.E., Silliman C.C.
    J. Immunol. 176:7039-7050(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ARRB1.
  14. Cited for: VARIANTS ASP-224 AND SER-338.

Entry informationi

Entry nameiPTAFR_HUMAN
AccessioniPrimary (citable) accession number: P25105
Secondary accession number(s): A3KMC8, A8K2H5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: February 4, 2015
This is version 149 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

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. 7-transmembrane G-linked receptors
    List of 7-transmembrane G-linked receptor entries
  2. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  7. 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.