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Protein

Calsyntenin-1

Gene

Clstn1

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

Functioni

Induces KLC1 association with vesicles and functions as a cargo in axonal anterograde transport. Complex formation with APBA2 and APP, stabilizes APP metabolism and enhances APBA2-mediated suppression of beta-APP40 secretion, due to the retardation of intracellular APP maturation. In complex with APBA2 and C99, a C-terminal APP fragment, abolishes C99 interaction with PSEN1 and thus APP C99 cleavage by gamma-secretase, most probably through stabilization of the direct interaction between APBA2 and APP. As intracellular fragment AlcICD, suppresses APBB1-dependent transactivation stimulated by APP C-terminal intracellular fragment (AICD), most probably by competing with AICD for APBB1-binding. May modulate calcium-mediated postsynaptic signals.2 Publications

GO - Molecular functioni

  • beta-amyloid binding Source: MGI
  • calcium ion binding Source: UniProtKB
  • kinesin binding Source: MGI
  • X11-like protein binding Source: MGI

GO - Biological processi

  • cellular calcium ion homeostasis Source: MGI
  • homophilic cell adhesion via plasma membrane adhesion molecules Source: InterPro
  • positive regulation of synapse assembly Source: MGI
  • positive regulation of synaptic transmission Source: MGI
  • regulation of cell growth Source: MGI
  • synaptic transmission Source: UniProtKB
Complete GO annotation...

Keywords - Biological processi

Cell adhesion

Keywords - Ligandi

Calcium

Names & Taxonomyi

Protein namesi
Recommended name:
Calsyntenin-1
Alternative name(s):
Alcadein-alpha
Short name:
Alc-alpha
Cleaved into the following 2 chains:
Soluble Alc-alpha
Short name:
SAlc-alpha
Alternative name(s):
C-terminal fragment 1-alpha
Gene namesi
Name:Clstn1
Synonyms:Cs1, Cstn1, Kiaa0911
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 4

Organism-specific databases

MGIiMGI:1929895. Clstn1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini29 – 859831ExtracellularSequence analysisAdd
BLAST
Transmembranei860 – 88021HelicalSequence analysisAdd
BLAST
Topological domaini881 – 97999CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • cell junction Source: UniProtKB-KW
  • cell surface Source: MGI
  • endoplasmic reticulum membrane Source: UniProtKB-SubCell
  • extracellular exosome Source: MGI
  • extracellular region Source: UniProtKB
  • Golgi membrane Source: UniProtKB-SubCell
  • integral component of membrane Source: MGI
  • neuronal postsynaptic density Source: MGI
  • nucleus Source: UniProtKB-SubCell
  • postsynaptic membrane Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Cell projection, Endoplasmic reticulum, Golgi apparatus, Membrane, Nucleus, Postsynaptic cell membrane, Synapse

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi900 – 9001E → A: Marked reduction in KLC1-binding. 1 Publication
Mutagenesisi901 – 9011M → A: Almost completely abolishes KLC1-binding. 1 Publication
Mutagenesisi902 – 9021D → A: Marked reduction in KLC1-binding. 1 Publication
Mutagenesisi903 – 9031W → A: Marked reduction in KLC1-binding; when associated with A-972. Marked alteration in anterograde axonal transport. 1 Publication
Mutagenesisi904 – 9041D → A: Almost completely abolishes KLC1-binding. 1 Publication
Mutagenesisi905 – 9051D → A: Almost completely abolishes KLC1-binding. 1 Publication
Mutagenesisi972 – 9721W → A: Marked reduction in KLC1-binding; when associated with A-903. Marked alteration in anterograde axonal transport. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2828By similarityAdd
BLAST
Chaini29 – 979951Calsyntenin-1PRO_0000004022Add
BLAST
Chaini29 – 825797Soluble Alc-alphaBy similarityPRO_0000323599Add
BLAST
Chaini826 – 979154CTF1-alphaBy similarityPRO_0000323600Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi346 – 3461N-linked (GlcNAc...)Sequence analysis
Glycosylationi366 – 3661N-linked (GlcNAc...)Sequence analysis
Glycosylationi515 – 5151N-linked (GlcNAc...)Sequence analysis

Post-translational modificationi

Proteolytically processed under normal cellular conditions. A primary zeta-cleavage generates a large extracellular (soluble) N-terminal domain (sAlc) and a short C-terminal transmembrane fragment (CTF1). A secondary cleavage catalyzed by presenilin gamma-secretase within the transmembrane domain releases the beta-Alc-alpha chain in the extracellular milieu and produces an intracellular fragment (AlcICD). Beta-Alc-alpha secretion is largely dependent upon PSEN1 and PSEN2. This processing is strongly suppressed in the tripartite complex formed with APBA2 and APP, which seems to prevent the association with PSEN1.2 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei824 – 8252CleavageBy similarity
Sitei853 – 8542CleavageBy similarity

Keywords - PTMi

Glycoprotein

Proteomic databases

MaxQBiQ9EPL2.
PaxDbiQ9EPL2.
PRIDEiQ9EPL2.

PTM databases

iPTMnetiQ9EPL2.
PhosphoSiteiQ9EPL2.

Expressioni

Tissue specificityi

Highly expressed in the brain (at protein level), with over 90% of the neurons expressing detectable amounts. In the brain, relatively high levels in the cerebral cortex, striatum, hippocampus and thalamus. Moderate levels in the cerebellum. Low levels in the olfactory bulb, midbrain and pons (at protein level). Not detected in Purkinje cells. Expressed at low levels in the lung (at protein level). At the mRNA level, weakly detected in the kidney, lung, skeletal muscle, heart and testis. Not expressed in the sciatic nerve fiber.3 Publications

Developmental stagei

Expression in the brain gradually increases during the first postnatal week, reaching a peak at P7. In the gray matter, highly expressed in both developing and adult brain. In the white matter, at P6 highly expressed in all major fiber tracts, including the anterior commissure and the corpus callosum, as well as the external and internal capsules, while in the adult, axonal expression in fiber tracts is only faint (at protein level).1 Publication

Gene expression databases

BgeeiQ9EPL2.
CleanExiMM_CLSTN1.
GenevisibleiQ9EPL2. MM.

Interactioni

Subunit structurei

Directly interacts with APBA2. Forms a tripartite complex with APBA2 and APP. The CTF1 chain interacts with PSEN1. The intracellular fragment AlcICD interacts with APBB1; this interaction stabilizes AlcICD metabolism. Interacts with KLC1 and APBB1.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
Klc1Q8CD763EBI-2013142,EBI-6271950

GO - Molecular functioni

Protein-protein interaction databases

BioGridi211147. 1 interaction.
IntActiQ9EPL2. 54 interactions.
MINTiMINT-1177026.
STRINGi10090.ENSMUSP00000036962.

Structurei

3D structure databases

ProteinModelPortaliQ9EPL2.
SMRiQ9EPL2. Positions 108-258.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini38 – 164127Cadherin 1PROSITE-ProRule annotationAdd
BLAST
Domaini165 – 265101Cadherin 2PROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi916 – 95742Glu-rich (highly acidic)Add
BLAST

Domaini

The cytoplasmic domain is involved in interaction with APBA2, as well as the binding of synaptic Ca2+.By similarity

Sequence similaritiesi

Contains 2 cadherin domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG1834. Eukaryota.
ENOG410XT2J. LUCA.
GeneTreeiENSGT00390000010858.
HOVERGENiHBG051146.
InParanoidiQ9EPL2.
OMAiITSTVKC.
OrthoDBiEOG7SFHVX.
PhylomeDBiQ9EPL2.
TreeFamiTF315946.

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
2.60.40.60. 2 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR026914. Calsyntenin.
IPR013320. ConA-like_dom.
[Graphical view]
PANTHERiPTHR14139. PTHR14139. 2 hits.
PfamiPF00028. Cadherin. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 2 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 2 hits.
SSF49899. SSF49899. 1 hit.
PROSITEiPS50268. CADHERIN_2. 2 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9EPL2-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MLRRPAPALA PAVRLLLAGL LCGGGVWAAR VNKHKPWLEP TYHGIVTEND
60 70 80 90 100
NTVLLDPPLI ALDKDSPLRF AESFEVTVTK EGEICGFKIH GQNVPFDAVV
110 120 130 140 150
VDKSTGEGII RSKEKLDCEL QKDYTFTIQA YDCGKGPDGT GVKKSHKATV
160 170 180 190 200
HIQVNDVNEY APVFKEKSYK AAVVEGKQHS SILRVEAVDA DCSPQFSQIC
210 220 230 240 250
SYEILTPDVP FTVDKDGYIK NTEKLNYGKE HQYKLTVTAY DCGKKRATED
260 270 280 290 300
VLVKISVKPT CSPGWQGWSS RIEYEPGTGA LAVFPSIHLE TCDEPVASVQ
310 320 330 340 350
ATVELETSHI GKGCDRDTYS EKSLHRLCGA AAGTSELLPS PSSSFNWTVG
360 370 380 390 400
LPTDNGHDSD QVFEFNGTQA VRIPDGVVTL DPKEPFTISV WMRHGPFGRK
410 420 430 440 450
KETILCSSDK TDMNRHHYSL YVHGCRLVFL LRQDPSEEKK YRPAEFHWKL
460 470 480 490 500
NQVCDEDWHH FVLNVEVPSV TLYVDGIPHE PFSVTEDYPL HPTKIETQLV
510 520 530 540 550
VGACWQEYSG VESGNETEPA TMASAGGDLH MTQFFRGNLA GLTVRSGKLA
560 570 580 590 600
DKKVIDCLYT CKEGLDLQVP EDANRGVQIQ ASSSQAVLTL EGDNVGELDK
610 620 630 640 650
AMQHISYLNS RQFPTPGIRR LKITSTVKCF NEAACIEVPP VEGYVMVLQP
660 670 680 690 700
EEPKISLSGV HHFARAASEF ESAEGISLFP ELRIISTITR EVEPEADGSE
710 720 730 740 750
DPTVQESLVS EEIVHDLDTC EVTVEGDELN AEQESLEVDV TRLQQKGIEA
760 770 780 790 800
SHSDLGVVFT GVETMASYEE VLHLLRYRNW HTRSLLDRKF KLICSELNGR
810 820 830 840 850
YLSNEFKVEV NVIHTANPVE HANHMAAQPQ FVHPEHRSFV DLSGHNLANP
860 870 880 890 900
HPFAVVPSTA TVVIVVCVSF LVFMIILGVF RIRAAHQRTM RDQDTGKENE
910 920 930 940 950
MDWDDSALTI TVNPMETYED QHSSEEEEEE EEEEESEDGE EEEDITSAES
960 970
ESSEEEEGGP GDGQNATRQL EWDDSTLSY
Length:979
Mass (Da):108,900
Last modified:March 1, 2001 - v1
Checksum:i898D62AE9C10A99C
GO
Isoform 2 (identifier: Q9EPL2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     72-81: Missing.

Show »
Length:969
Mass (Da):107,749
Checksum:iA7E02BD853875097
GO

Sequence cautioni

The sequence BAD32337.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei72 – 8110Missing in isoform 2. 2 PublicationsVSP_032036

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ289016 mRNA. Translation: CAC17788.1.
AK173059 mRNA. Translation: BAD32337.1. Different initiation.
AL607078 Genomic DNA. Translation: CAM23910.1.
AL607078 Genomic DNA. Translation: CAM23911.1.
CU210912, CU207384 Genomic DNA. Translation: CAQ51663.1.
CU210912, CU207384 Genomic DNA. Translation: CAQ51664.1.
CU207384, CU210912 Genomic DNA. Translation: CAQ51676.1.
CU207384, CU210912 Genomic DNA. Translation: CAQ51677.1.
BC029027 mRNA. Translation: AAH29027.1.
BC053843 mRNA. Translation: AAH53843.1.
CCDSiCCDS18963.1. [Q9EPL2-1]
CCDS71522.1. [Q9EPL2-2]
RefSeqiNP_001277918.1. NM_001290989.1. [Q9EPL2-2]
NP_075538.1. NM_023051.5. [Q9EPL2-1]
UniGeneiMm.38993.

Genome annotation databases

EnsembliENSMUST00000039144; ENSMUSP00000036962; ENSMUSG00000039953. [Q9EPL2-1]
ENSMUST00000105691; ENSMUSP00000101316; ENSMUSG00000039953. [Q9EPL2-2]
GeneIDi65945.
KEGGimmu:65945.
UCSCiuc008vwo.2. mouse. [Q9EPL2-1]
uc008vwp.2. mouse. [Q9EPL2-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ289016 mRNA. Translation: CAC17788.1.
AK173059 mRNA. Translation: BAD32337.1. Different initiation.
AL607078 Genomic DNA. Translation: CAM23910.1.
AL607078 Genomic DNA. Translation: CAM23911.1.
CU210912, CU207384 Genomic DNA. Translation: CAQ51663.1.
CU210912, CU207384 Genomic DNA. Translation: CAQ51664.1.
CU207384, CU210912 Genomic DNA. Translation: CAQ51676.1.
CU207384, CU210912 Genomic DNA. Translation: CAQ51677.1.
BC029027 mRNA. Translation: AAH29027.1.
BC053843 mRNA. Translation: AAH53843.1.
CCDSiCCDS18963.1. [Q9EPL2-1]
CCDS71522.1. [Q9EPL2-2]
RefSeqiNP_001277918.1. NM_001290989.1. [Q9EPL2-2]
NP_075538.1. NM_023051.5. [Q9EPL2-1]
UniGeneiMm.38993.

3D structure databases

ProteinModelPortaliQ9EPL2.
SMRiQ9EPL2. Positions 108-258.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi211147. 1 interaction.
IntActiQ9EPL2. 54 interactions.
MINTiMINT-1177026.
STRINGi10090.ENSMUSP00000036962.

PTM databases

iPTMnetiQ9EPL2.
PhosphoSiteiQ9EPL2.

Proteomic databases

MaxQBiQ9EPL2.
PaxDbiQ9EPL2.
PRIDEiQ9EPL2.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000039144; ENSMUSP00000036962; ENSMUSG00000039953. [Q9EPL2-1]
ENSMUST00000105691; ENSMUSP00000101316; ENSMUSG00000039953. [Q9EPL2-2]
GeneIDi65945.
KEGGimmu:65945.
UCSCiuc008vwo.2. mouse. [Q9EPL2-1]
uc008vwp.2. mouse. [Q9EPL2-2]

Organism-specific databases

CTDi22883.
MGIiMGI:1929895. Clstn1.
RougeiSearch...

Phylogenomic databases

eggNOGiKOG1834. Eukaryota.
ENOG410XT2J. LUCA.
GeneTreeiENSGT00390000010858.
HOVERGENiHBG051146.
InParanoidiQ9EPL2.
OMAiITSTVKC.
OrthoDBiEOG7SFHVX.
PhylomeDBiQ9EPL2.
TreeFamiTF315946.

Miscellaneous databases

ChiTaRSiClstn1. mouse.
PROiQ9EPL2.
SOURCEiSearch...

Gene expression databases

BgeeiQ9EPL2.
CleanExiMM_CLSTN1.
GenevisibleiQ9EPL2. MM.

Family and domain databases

Gene3Di2.60.120.200. 1 hit.
2.60.40.60. 2 hits.
InterProiIPR002126. Cadherin.
IPR015919. Cadherin-like.
IPR026914. Calsyntenin.
IPR013320. ConA-like_dom.
[Graphical view]
PANTHERiPTHR14139. PTHR14139. 2 hits.
PfamiPF00028. Cadherin. 1 hit.
[Graphical view]
PRINTSiPR00205. CADHERIN.
SMARTiSM00112. CA. 2 hits.
[Graphical view]
SUPFAMiSSF49313. SSF49313. 2 hits.
SSF49899. SSF49899. 1 hit.
PROSITEiPS50268. CADHERIN_2. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Calsyntenin-1, a proteolytically processed postsynaptic membrane protein with a cytoplasmic calcium-binding domain."
    Vogt L., Schrimpf S.P., Meskenaite V., Frischknecht R., Kinter J., Leone D.P., Ziegler U., Sonderegger P.
    Mol. Cell. Neurosci. 17:151-166(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), PARTIAL PROTEIN SEQUENCE, CLEAVAGE.
    Strain: BALB/cJ.
    Tissue: Brain.
  2. "Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Seino S., Nishimura M., Kaisho T., Hoshino K., Kitamura H., Nagase T., Ohara O., Koga H.
    DNA Res. 11:205-218(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Brain.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  4. "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] (ISOFORM 2).
    Strain: C57BL/6J.
    Tissue: Olfactory epithelium and Retina.
  5. "The calsyntenins - a family of postsynaptic membrane proteins with distinct neuronal expression patterns."
    Hintsch G., Zurlinden A., Meskenaite V., Steuble M., Fink-Widmer K., Kinter J., Sonderegger P.
    Mol. Cell. Neurosci. 21:393-409(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY.
  6. "Novel cadherin-related membrane proteins, Alcadeins, enhance the X11-like protein-mediated stabilization of amyloid beta-protein precursor metabolism."
    Araki Y., Tomita S., Yamaguchi H., Miyagi N., Sumioka A., Kirino Y., Suzuki T.
    J. Biol. Chem. 278:49448-49458(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, SUBCELLULAR LOCATION, INTERACTION WITH APBA2.
  7. "Coordinated metabolism of Alcadein and amyloid beta-protein precursor regulates FE65-dependent gene transactivation."
    Araki Y., Miyagi N., Kato N., Yoshida T., Wada S., Nishimura M., Komano H., Yamamoto T., De Strooper B., Yamamoto K., Suzuki T.
    J. Biol. Chem. 279:24343-24354(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: PROTEOLYTIC CLEAVAGE, GLYCOSYLATION.
  8. Cited for: INTERACTION WITH KLC1, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, MUTAGENESIS OF GLU-900; MET-901; ASP-902; TRP-903; ASP-904; ASP-905 AND TRP-972.
  9. "The novel cargo Alcadein induces vesicle association of kinesin-1 motor components and activates axonal transport."
    Araki Y., Kawano T., Taru H., Saito Y., Wada S., Miyamoto K., Kobayashi H., Ishikawa H.O., Ohsugi Y., Yamamoto T., Matsuno K., Kinjo M., Suzuki T.
    EMBO J. 26:1475-1486(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH KLC1 AND APBB1, SUBCELLULAR LOCATION, GLYCOSYLATION.
  10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain and Lung.

Entry informationi

Entry nameiCSTN1_MOUSE
AccessioniPrimary (citable) accession number: Q9EPL2
Secondary accession number(s): A2A800
, B2KFP1, B2KFP2, Q69ZV9, Q7TS67, Q8K103
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 19, 2002
Last sequence update: March 1, 2001
Last modified: June 8, 2016
This is version 122 of the entry and version 1 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

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.