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Protein

Cdc42-interacting protein 4

Gene

TRIP10

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

Functioni

Required for translocation of GLUT4 to the plasma membrane in response to insulin signaling (By similarity). Required to coordinate membrane tubulation with reorganization of the actin cytoskeleton during endocytosis. Binds to lipids such as phosphatidylinositol 4,5-bisphosphate and phosphatidylserine and promotes membrane invagination and the formation of tubules. Also promotes CDC42-induced actin polymerization by recruiting WASL/N-WASP which in turn activates the Arp2/3 complex. Actin polymerization may promote the fission of membrane tubules to form endocytic vesicles. Required for the formation of podosomes, actin-rich adhesion structures specific to monocyte-derived cells. May be required for the lysosomal retention of FASLG/FASL.By similarity3 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei166 – 1661Mediates end-to-end attachment of dimers

GO - Molecular functioni

GO - Biological processi

  • actin cytoskeleton organization Source: UniProtKB
  • cell communication Source: UniProtKB
  • endocytosis Source: UniProtKB-KW
  • regulation of small GTPase mediated signal transduction Source: Reactome
  • signal transduction Source: ProtInc
  • vesicle-mediated transport Source: GO_Central
Complete GO annotation...

Keywords - Biological processi

Endocytosis

Keywords - Ligandi

Lipid-binding

Enzyme and pathway databases

ReactomeiR-HSA-194840. Rho GTPase cycle.
SignaLinkiQ15642.
SIGNORiQ15642.

Names & Taxonomyi

Protein namesi
Recommended name:
Cdc42-interacting protein 4
Alternative name(s):
Protein Felic
Salt tolerant protein
Short name:
hSTP
Thyroid receptor-interacting protein 10
Short name:
TR-interacting protein 10
Short name:
TRIP-10
Gene namesi
Name:TRIP10
Synonyms:CIP4, STOT, STP
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 19

Organism-specific databases

HGNCiHGNC:12304. TRIP10.

Subcellular locationi

GO - Cellular componenti

  • cell cortex Source: UniProtKB-SubCell
  • cell projection Source: UniProtKB-KW
  • cytoplasm Source: UniProtKB
  • cytoskeleton Source: UniProtKB-SubCell
  • cytosol Source: Reactome
  • extracellular exosome Source: UniProtKB
  • intracellular membrane-bounded organelle Source: HPA
  • lysosome Source: UniProtKB-SubCell
  • nucleoplasm Source: HPA
  • perinuclear region of cytoplasm Source: UniProtKB-SubCell
  • phagocytic cup Source: UniProtKB-SubCell
  • trans-Golgi network Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Cell projection, Cytoplasm, Cytoskeleton, Golgi apparatus, Lysosome, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi454 – 4541I → S: Abrogates interaction with CDC42. 1 Publication
Mutagenesisi468 – 4681L → S: Impairs interaction with CDC42. 1 Publication

Organism-specific databases

PharmGKBiPA36983.

Polymorphism and mutation databases

DMDMi118572632.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 601601Cdc42-interacting protein 4PRO_0000089766Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei296 – 2961PhosphoserineCombined sources
Modified residuei298 – 2981PhosphoserineCombined sources
Modified residuei299 – 2991PhosphoserineCombined sources
Modified residuei335 – 3351PhosphoserineCombined sources
Modified residuei351 – 3511PhosphoserineCombined sources
Modified residuei482 – 4821PhosphoserineCombined sources
Modified residuei500 – 5001PhosphoserineBy similarity
Modified residuei504 – 5041PhosphoserineBy similarity

Post-translational modificationi

Tyrosine phosphorylated. Also phosphorylated by PKA.3 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ15642.
MaxQBiQ15642.
PeptideAtlasiQ15642.
PRIDEiQ15642.

PTM databases

iPTMnetiQ15642.
PhosphoSiteiQ15642.

Expressioni

Tissue specificityi

Expressed in brain, colon, heart, kidney, liver, lung, megakaryocyte, ovary, pancreas, peripheral blood lymphocytes, placenta, prostate, skeletal muscle, small intestine, spleen, testis, thymus and trachea.5 Publications

Inductioni

Induced by adriamycin treatment and this effect is counteracted by HGF/SF. Expression is reduced during differentiation.2 Publications

Gene expression databases

BgeeiENSG00000125733.
ExpressionAtlasiQ15642. baseline and differential.
GenevisibleiQ15642. HS.

Organism-specific databases

HPAiHPA041934.

Interactioni

Subunit structurei

Interacts specifically with GTP-bound RHOQ. Interacts with DNM2 and PDE6G (By similarity). Homodimerizes, the dimers can polymerize end-to-end to form filamentous structures. Interacts specifically with GTP-bound CDC42. Interacts with AKAP9, ARHGAP17, DAAM1, DIAPH1, DIAPH2, DNM1, FASLG/FASL, GAPVD1, LYN, microtubules, SRC, WAS/WASP and WASL/N-WASP. Interacts with the ligand binding domain of the thyroid receptor (TR) in the presence of thyroid hormone. May interact with CTNNB1 and HD/HTT.By similarity11 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
itself4EBI-739936,EBI-739936
ARHGAP12Q1RLN53EBI-739936,EBI-3959665
ARHGAP17Q68EM73EBI-739936,EBI-1642807
ARHGAP44Q17R89-23EBI-739936,EBI-10238335
DAAM1Q9Y4D12EBI-6550597,EBI-2817289
FASLGP480234EBI-739936,EBI-495538
RHOJQ9H4E53EBI-739936,EBI-6285694
SH3BP1Q9Y3L33EBI-739936,EBI-346869
SMARCE1Q969G33EBI-739936,EBI-455078
TINF2Q9BSI42EBI-739936,EBI-717399
WASF1Q925583EBI-739936,EBI-1548747

GO - Molecular functioni

  • identical protein binding Source: IntAct

Protein-protein interaction databases

BioGridi114733. 50 interactions.
IntActiQ15642. 22 interactions.
MINTiMINT-124352.

Structurei

Secondary structure

1
601
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi10 – 5344Combined sources
Helixi68 – 9730Combined sources
Helixi99 – 16062Combined sources
Helixi166 – 20641Combined sources
Helixi208 – 25851Combined sources
Helixi261 – 27111Combined sources
Helixi273 – 2753Combined sources
Beta strandi391 – 3944Combined sources
Helixi396 – 42126Combined sources
Helixi423 – 43311Combined sources
Helixi435 – 4373Combined sources
Helixi440 – 4423Combined sources
Helixi444 – 47734Combined sources
Beta strandi544 – 5496Combined sources
Beta strandi566 – 5716Combined sources
Beta strandi574 – 5763Combined sources
Beta strandi578 – 5825Combined sources
Beta strandi584 – 5863Combined sources
Beta strandi588 – 5925Combined sources
Helixi593 – 5953Combined sources
Beta strandi596 – 5983Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2CT4NMR-A543-599[»]
2EFKX-ray2.30A10-303[»]
2KE4NMR-A388-481[»]
ProteinModelPortaliQ15642.
SMRiQ15642. Positions 10-288, 384-481, 544-599.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ15642.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini1 – 264264F-BARPROSITE-ProRule annotationAdd
BLAST
Repeati405 – 48177REMAdd
BLAST
Domaini540 – 60162SH3PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 117117Required for podosome formation and interaction with AKAP9 and microtubulesAdd
BLAST
Regioni1 – 117117Required for translocation to the plasma membrane in response to insulinBy similarityAdd
BLAST
Regioni293 – 601309Interaction with PDE6GBy similarityAdd
BLAST
Regioni293 – 537245Interaction with CDC42Add
BLAST
Regioni471 – 601131Required for interaction with FASLG and localization to lysosomesAdd
BLAST
Regioni487 – 54155Interaction with DNM2 and WASLBy similarityAdd
BLAST
Regioni529 – 60173Interaction with DNM1 and WASLAdd
BLAST
Regioni538 – 60164Required for podosome formationAdd
BLAST
Regioni544 – 60158Interaction with WASAdd
BLAST
Regioni546 – 60156Interaction with ARHGAP17, DAAM1, DIAPH1 and DIAPH2Add
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili67 – 259193Add
BLAST
Coiled coili388 – 48194Add
BLAST

Domaini

The F-BAR domain binds the phospholipid membrane with its concave surface. The end-to-end polymerization of dimers of these domains provides a curved surface that fits best membranes with around 600 A diameter, and may drive tubulation.1 Publication

Sequence similaritiesi

Belongs to the FNBP1 family.Curated
Contains 1 F-BAR domain.PROSITE-ProRule annotation
Contains 1 REM (Hr1) repeat.Curated
Contains 1 SH3 domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, SH3 domain

Phylogenomic databases

GeneTreeiENSGT00510000046403.
HOVERGENiHBG002489.
InParanoidiQ15642.
KOiK07196.
OMAiERQEQAN.
OrthoDBiEOG091G038P.
PhylomeDBiQ15642.
TreeFamiTF351162.

Family and domain databases

InterProiIPR031160. F_BAR.
IPR001060. FCH_dom.
IPR001452. SH3_domain.
[Graphical view]
PfamiPF00611. FCH. 1 hit.
PF00018. SH3_1. 1 hit.
[Graphical view]
SMARTiSM00055. FCH. 1 hit.
SM00326. SH3. 1 hit.
[Graphical view]
SUPFAMiSSF50044. SSF50044. 1 hit.
PROSITEiPS51741. F_BAR. 1 hit.
PS50002. SH3. 1 hit.
[Graphical view]

Sequences (5)i

Sequence statusi: Complete.

This entry describes 5 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q15642-1) [UniParc]FASTAAdd to basket
Also known as: L

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
MDWGTELWDQ FEVLERHTQW GLDLLDRYVK FVKERTEVEQ AYAKQLRSLV
60 70 80 90 100
KKYLPKRPAK DDPESKFSQQ QSFVQILQEV NDFAGQRELV AENLSVRVCL
110 120 130 140 150
ELTKYSQEMK QERKMHFQEG RRAQQQLENG FKQLENSKRK FERDCREAEK
160 170 180 190 200
AAQTAERLDQ DINATKADVE KAKQQAHLRS HMAEESKNEY AAQLQRFNRD
210 220 230 240 250
QAHFYFSQMP QIFDKLQDMD ERRATRLGAG YGLLSEAELE VVPIIAKCLE
260 270 280 290 300
GMKVAANAVD PKNDSHVLIE LHKSGFARPG DVEFEDFSQP MNRAPSDSSL
310 320 330 340 350
GTPSDGRPEL RGPGRSRTKR WPFGKKNKPR PPPLSPLGGP VPSALPNGPP
360 370 380 390 400
SPRSGRDPLA ILSEISKSVK PRLASFRSLR GSRGTVVTED FSHLPPEQQR
410 420 430 440 450
KRLQQQLEER SRELQKEVDQ REALKKMKDV YEKTPQMGDP ASLEPQIAET
460 470 480 490 500
LSNIERLKLE VQKYEAWLAE AESRVLSNRG DSLSRHARPP DPPASAPPDS
510 520 530 540 550
SSNSASQDTK ESSEEPPSEE SQDTPIYTEF DEDFEEEPTS PIGHCVAIYH
560 570 580 590 600
FEGSSEGTIS MAEGEDLSLM EEDKGDGWTR VRRKEGGEGY VPTSYLRVTL

N
Length:601
Mass (Da):68,352
Last modified:November 28, 2006 - v3
Checksum:iA9BFE85520C7ABC5
GO
Isoform 2 (identifier: Q15642-2) [UniParc]FASTAAdd to basket
Also known as: A, W

The sequence of this isoform differs from the canonical sequence as follows:
     329-384: Missing.

Show »
Length:545
Mass (Da):62,592
Checksum:i9C9D72EA734BC6E2
GO
Isoform 3 (identifier: Q15642-3) [UniParc]FASTAAdd to basket
Also known as: B

The sequence of this isoform differs from the canonical sequence as follows:
     329-384: Missing.
     553-601: GSSEGTISMA...PTSYLRVTLN → DLGPPPPPSQ...LTPWLRLRPV

Note: No experimental confirmation available.
Show »
Length:593
Mass (Da):67,603
Checksum:i888A0FE78B42428B
GO
Isoform 4 (identifier: Q15642-4) [UniParc]FASTAAdd to basket
Also known as: C

The sequence of this isoform differs from the canonical sequence as follows:
     329-384: Missing.
     512-512: S → R
     513-601: Missing.

Note: No experimental confirmation available.
Show »
Length:456
Mass (Da):52,700
Checksum:iDBB2D486BC96832A
GO
Isoform 5 (identifier: Q15642-5) [UniParc]FASTAAdd to basket
Also known as: V

The sequence of this isoform differs from the canonical sequence as follows:
     330-341: RPPPLSPLGGPV → SRQPWDSGDRGF
     342-601: Missing.

Note: No experimental confirmation available.
Show »
Length:341
Mass (Da):39,583
Checksum:iA9568C38795E2E1E
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti158 – 1581L → P in AAK77492 (PubMed:12054674).Curated
Sequence conflicti310 – 3101L → P in AAK77492 (PubMed:12054674).Curated
Sequence conflicti419 – 4191D → G in BAD96829 (Ref. 8) Curated
Sequence conflicti440 – 4401P → S in BAD96829 (Ref. 8) Curated
Sequence conflicti473 – 4731S → R in AAK77492 (PubMed:12054674).Curated
Sequence conflicti487 – 49913ARPPD…SAPPD → KHPIICRLIHFSN in AAC41729 (Ref. 10) CuratedAdd
BLAST
Sequence conflicti553 – 5531G → W in CAG38751 (Ref. 5) Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei329 – 38456Missing in isoform 2, isoform 3 and isoform 4. 7 PublicationsVSP_021716Add
BLAST
Alternative sequencei330 – 34112RPPPL…LGGPV → SRQPWDSGDRGF in isoform 5. 1 PublicationVSP_021717Add
BLAST
Alternative sequencei342 – 601260Missing in isoform 5. 1 PublicationVSP_021718Add
BLAST
Alternative sequencei512 – 5121S → R in isoform 4. 1 PublicationVSP_021719
Alternative sequencei513 – 60189Missing in isoform 4. 1 PublicationVSP_021720Add
BLAST
Alternative sequencei553 – 60149GSSEG…RVTLN → DLGPPPPPSQGPARALSLWP RVKTSVLWKKTKGTAGPGSG GKREARATCPPPTSESRSIE PCQRREEGGCRLLLLGHGGS QDLGTLFLTPWLRLRPV in isoform 3. 1 PublicationVSP_021721Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ000414 mRNA. Translation: CAA04062.1.
AF380114 mRNA. Translation: AAK77492.1.
AY081141 mRNA. Translation: AAL89588.1.
AB072596 mRNA. Translation: BAB88853.1.
AF502289 mRNA. Translation: AAM46851.1.
CR536513 mRNA. Translation: CAG38751.1.
BT006698 mRNA. Translation: AAP35344.1.
BT020167 mRNA. Translation: AAV38969.1.
BT020171 mRNA. Translation: AAV43773.1.
AK223109 mRNA. Translation: BAD96829.1.
AK313296 mRNA. Translation: BAG36103.1.
AC008760 Genomic DNA. No translation available.
CH471139 Genomic DNA. Translation: EAW69065.1.
CH471139 Genomic DNA. Translation: EAW69062.1.
CH471139 Genomic DNA. Translation: EAW69063.1.
BC013002 mRNA. Translation: AAH13002.1.
L40379 mRNA. Translation: AAC41729.1.
CCDSiCCDS12172.1. [Q15642-2]
CCDS74271.1. [Q15642-1]
CCDS74272.1. [Q15642-3]
RefSeqiNP_001275891.1. NM_001288962.1. [Q15642-1]
NP_001275892.1. NM_001288963.1.
NP_004231.1. NM_004240.3. [Q15642-2]
UniGeneiHs.515094.

Genome annotation databases

EnsembliENST00000313244; ENSP00000320117; ENSG00000125733. [Q15642-1]
ENST00000313285; ENSP00000320493; ENSG00000125733. [Q15642-2]
GeneIDi9322.
KEGGihsa:9322.
UCSCiuc002mfr.5. human. [Q15642-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ000414 mRNA. Translation: CAA04062.1.
AF380114 mRNA. Translation: AAK77492.1.
AY081141 mRNA. Translation: AAL89588.1.
AB072596 mRNA. Translation: BAB88853.1.
AF502289 mRNA. Translation: AAM46851.1.
CR536513 mRNA. Translation: CAG38751.1.
BT006698 mRNA. Translation: AAP35344.1.
BT020167 mRNA. Translation: AAV38969.1.
BT020171 mRNA. Translation: AAV43773.1.
AK223109 mRNA. Translation: BAD96829.1.
AK313296 mRNA. Translation: BAG36103.1.
AC008760 Genomic DNA. No translation available.
CH471139 Genomic DNA. Translation: EAW69065.1.
CH471139 Genomic DNA. Translation: EAW69062.1.
CH471139 Genomic DNA. Translation: EAW69063.1.
BC013002 mRNA. Translation: AAH13002.1.
L40379 mRNA. Translation: AAC41729.1.
CCDSiCCDS12172.1. [Q15642-2]
CCDS74271.1. [Q15642-1]
CCDS74272.1. [Q15642-3]
RefSeqiNP_001275891.1. NM_001288962.1. [Q15642-1]
NP_001275892.1. NM_001288963.1.
NP_004231.1. NM_004240.3. [Q15642-2]
UniGeneiHs.515094.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2CT4NMR-A543-599[»]
2EFKX-ray2.30A10-303[»]
2KE4NMR-A388-481[»]
ProteinModelPortaliQ15642.
SMRiQ15642. Positions 10-288, 384-481, 544-599.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114733. 50 interactions.
IntActiQ15642. 22 interactions.
MINTiMINT-124352.

PTM databases

iPTMnetiQ15642.
PhosphoSiteiQ15642.

Polymorphism and mutation databases

DMDMi118572632.

Proteomic databases

EPDiQ15642.
MaxQBiQ15642.
PeptideAtlasiQ15642.
PRIDEiQ15642.

Protocols and materials databases

DNASUi9322.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000313244; ENSP00000320117; ENSG00000125733. [Q15642-1]
ENST00000313285; ENSP00000320493; ENSG00000125733. [Q15642-2]
GeneIDi9322.
KEGGihsa:9322.
UCSCiuc002mfr.5. human. [Q15642-1]

Organism-specific databases

CTDi9322.
GeneCardsiTRIP10.
H-InvDBHIX0014704.
HGNCiHGNC:12304. TRIP10.
HPAiHPA041934.
MIMi604504. gene.
neXtProtiNX_Q15642.
PharmGKBiPA36983.
GenAtlasiSearch...

Phylogenomic databases

GeneTreeiENSGT00510000046403.
HOVERGENiHBG002489.
InParanoidiQ15642.
KOiK07196.
OMAiERQEQAN.
OrthoDBiEOG091G038P.
PhylomeDBiQ15642.
TreeFamiTF351162.

Enzyme and pathway databases

ReactomeiR-HSA-194840. Rho GTPase cycle.
SignaLinkiQ15642.
SIGNORiQ15642.

Miscellaneous databases

ChiTaRSiTRIP10. human.
EvolutionaryTraceiQ15642.
GeneWikiiTRIP10.
GenomeRNAii9322.
PROiQ15642.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000125733.
ExpressionAtlasiQ15642. baseline and differential.
GenevisibleiQ15642. HS.

Family and domain databases

InterProiIPR031160. F_BAR.
IPR001060. FCH_dom.
IPR001452. SH3_domain.
[Graphical view]
PfamiPF00611. FCH. 1 hit.
PF00018. SH3_1. 1 hit.
[Graphical view]
SMARTiSM00055. FCH. 1 hit.
SM00326. SH3. 1 hit.
[Graphical view]
SUPFAMiSSF50044. SSF50044. 1 hit.
PROSITEiPS51741. F_BAR. 1 hit.
PS50002. SH3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCIP4_HUMAN
AccessioniPrimary (citable) accession number: Q15642
Secondary accession number(s): B2R8A6
, B7WP22, D6W645, O15184, Q53G22, Q5TZN1, Q6FI24, Q8NFL1, Q8TCY1, Q8TDX3, Q96RJ1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 28, 2006
Last modified: September 7, 2016
This is version 164 of the entry and version 3 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. Human chromosome 19
    Human chromosome 19: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.