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Q9Y4P8 (WIPI2_HUMAN) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 116. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
WD repeat domain phosphoinositide-interacting protein 2

Short name=WIPI-2
Alternative name(s):
WIPI49-like protein 2
Gene names
Name:WIPI2
ORF Names:CGI-50
OrganismHomo sapiens (Human) [Reference proteome]
Taxonomic identifier9606 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo

Protein attributes

Sequence length454 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Probable early component of the autophagy machinery being involved in formation of preautophagosomal structures and their maturation into mature phagosomes in response to PtdIns3P. May bind PtdIns3P. Ref.10

Subunit structure

Interacts with TECPR1. Ref.11

Subcellular location

Preautophagosomal structure membrane; Peripheral membrane protein; Cytoplasmic side. Note: Enriched at preautophagosomal structure membranes in response to ptdIns3P. Ref.10 Ref.12 Ref.13

Tissue specificity

Ubiquitously expressed (at protein level). Highly expressed in heart, skeletal muscle and pancreas. Expression is down-regulated in pancreatic and in kidney tumors. Ref.1 Ref.10

Sequence similarities

Belongs to the WD repeat SVP1 family.

Contains 3 WD repeats.

Alternative products

This entry describes 6 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q9Y4P8-1)

Also known as: WIPI-2 alpha; WIPI2a;

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.
Isoform 2 (identifier: Q9Y4P8-2)

Also known as: WIPI-2 beta; WIPI2d;

The sequence of this isoform differs from the canonical sequence as follows:
     26-43: Missing.
     407-417: Missing.
Isoform 3 (identifier: Q9Y4P8-3)

Also known as: WIPI2e;

The sequence of this isoform differs from the canonical sequence as follows:
     1-59: Missing.
     60-71: SVDKLEQIYECT → MFTHVLPFVISA
     407-417: Missing.
Note: No experimental confirmation available.
Isoform 4 (identifier: Q9Y4P8-4)

Also known as: WIPI2b;

The sequence of this isoform differs from the canonical sequence as follows:
     26-43: Missing.
Isoform 5 (identifier: Q9Y4P8-5)

Also known as: WIPI-2 delta;

The sequence of this isoform differs from the canonical sequence as follows:
     1-71: MNLASQSGEA...DKLEQIYECT → MLLRLQRIKT...THVLPFVISA
     407-417: Missing.
Isoform 6 (identifier: Q9Y4P8-6)

Also known as: WIPI2c;

The sequence of this isoform differs from the canonical sequence as follows:
     407-417: Missing.
Note: No experimental confirmation available.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 454454WD repeat domain phosphoinositide-interacting protein 2
PRO_0000051440

Regions

Repeat200 – 24041WD 1
Repeat246 – 28540WD 2
Repeat329 – 36739WD 3

Amino acid modifications

Modified residue4131Phosphoserine Ref.9

Natural variations

Alternative sequence1 – 7171MNLAS…IYECT → MLLRLQRIKTLRPPGCPHPM TTCSAGTLSAVPCVSPRQVF VFERRFCLWHSHVEMFTHVL PFVISA in isoform 5.
VSP_016971
Alternative sequence1 – 5959Missing in isoform 3.
VSP_016970
Alternative sequence26 – 4318Missing in isoform 2 and isoform 4.
VSP_016972
Alternative sequence60 – 7112SVDKL…IYECT → MFTHVLPFVISA in isoform 3.
VSP_016973
Alternative sequence407 – 41711Missing in isoform 2, isoform 3, isoform 5 and isoform 6.
VSP_016974

Experimental info

Sequence conflict1391I → T in CAG38561. Ref.1
Sequence conflict1651S → P in AAV80761. Ref.1
Sequence conflict3801E → K in AAD34045. Ref.2

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 (WIPI-2 alpha) (WIPI2a) [UniParc].

Last modified November 1, 1999. Version 1.
Checksum: B69CEC399B56F35C

FASTA45449,408
        10         20         30         40         50         60 
MNLASQSGEA GAGQLLFANF NQDNTEVKGA SRAAGLGRRA VVWSLAVGSK SGYKFFSLSS 

        70         80         90        100        110        120 
VDKLEQIYEC TDTEDVCIVE RLFSSSLVAI VSLKAPRKLK VCHFKKGTEI CNYSYSNTIL 

       130        140        150        160        170        180 
AVKLNRQRLI VCLEESLYIH NIRDMKVLHT IRETPPNPAG LCALSINNDN CYLAYPGSAT 

       190        200        210        220        230        240 
IGEVQVFDTI NLRAANMIPA HDSPLAALAF DASGTKLATA SEKGTVIRVF SIPEGQKLFE 

       250        260        270        280        290        300 
FRRGVKRCVS ICSLAFSMDG MFLSASSNTE TVHIFKLETV KEKPPEEPTT WTGYFGKVLM 

       310        320        330        340        350        360 
ASTSYLPSQV TEMFNQGRAF ATVRLPFCGH KNICSLATIQ KIPRLLVGAA DGYLYMYNLD 

       370        380        390        400        410        420 
PQEGGECALM KQHRLDGSLE TTNEILDSAS HDCPLVTQTY GAAAGKGTYV PSSPTRLAYT 

       430        440        450 
DDLGAVGGAC LEDEASALRL DEDSEHPPMI LRTD 

« Hide

Isoform 2 (WIPI-2 beta) (WIPI2d) [UniParc].

Checksum: 5FD85B554CA97F41
Show »

FASTA42546,384
Isoform 3 (WIPI2e) [UniParc].

Checksum: E4C83CA999C10460
Show »

FASTA38442,077
Isoform 4 (WIPI2b) [UniParc].

Checksum: 0266FEC9E5338877
Show »

FASTA43647,543
Isoform 5 (WIPI-2 delta) [UniParc].

Checksum: D9F056ACE602F833
Show »

FASTA43848,251
Isoform 6 (WIPI2c) [UniParc].

Checksum: A07814F3A3C402A1
Show »

FASTA44348,249

References

« Hide 'large scale' references
[1]"WIPI-1alpha (WIPI49), a member of the novel 7-bladed WIPI protein family, is aberrantly expressed in human cancer and is linked to starvation-induced autophagy."
Proikas-Cezanne T., Waddell S., Gaugel A., Frickey T., Lupas A., Nordheim A.
Oncogene 23:9314-9325(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 2 AND 5), ALTERNATIVE SPLICING, TISSUE SPECIFICITY.
Tissue: Testis.
[2]"Identification of novel human genes evolutionarily conserved in Caenorhabditis elegans by comparative proteomics."
Lai C.-H., Chou C.-Y., Ch'ang L.-Y., Liu C.-S., Lin W.-C.
Genome Res. 10:703-713(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 5).
[3]"Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs."
Wiemann S., Weil B., Wellenreuther R., Gassenhuber J., Glassl S., Ansorge W., Boecher M., Bloecker H., Bauersachs S., Blum H., Lauber J., Duesterhoeft A., Beyer A., Koehrer K., Strack N., Mewes H.-W., Ottenwaelder B., Obermaier B. expand/collapse author list , Tampe J., Heubner D., Wambutt R., Korn B., Klein M., Poustka A.
Genome Res. 11:422-435(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
Tissue: Testis.
[4]"Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
[5]"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. expand/collapse author list , 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(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 4).
[6]"The DNA sequence of human chromosome 7."
Hillier L.W., Fulton R.S., Fulton L.A., Graves T.A., Pepin K.H., Wagner-McPherson C., Layman D., Maas J., Jaeger S., Walker R., Wylie K., Sekhon M., Becker M.C., O'Laughlin M.D., Schaller M.E., Fewell G.A., Delehaunty K.D., Miner T.L. expand/collapse author list , Nash W.E., Cordes M., Du H., Sun H., Edwards J., Bradshaw-Cordum H., Ali J., Andrews S., Isak A., Vanbrunt A., Nguyen C., Du F., Lamar B., Courtney L., Kalicki J., Ozersky P., Bielicki L., Scott K., Holmes A., Harkins R., Harris A., Strong C.M., Hou S., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Leonard S., Rohlfing T., Rock S.M., Tin-Wollam A.-M., Abbott A., Minx P., Maupin R., Strowmatt C., Latreille P., Miller N., Johnson D., Murray J., Woessner J.P., Wendl M.C., Yang S.-P., Schultz B.R., Wallis J.W., Spieth J., Bieri T.A., Nelson J.O., Berkowicz N., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Bedell J.A., Mardis E.R., Clifton S.W., Chissoe S.L., Marra M.A., Raymond C., Haugen E., Gillett W., Zhou Y., James R., Phelps K., Iadanoto S., Bubb K., Simms E., Levy R., Clendenning J., Kaul R., Kent W.J., Furey T.S., Baertsch R.A., Brent M.R., Keibler E., Flicek P., Bork P., Suyama M., Bailey J.A., Portnoy M.E., Torrents D., Chinwalla A.T., Gish W.R., Eddy S.R., McPherson J.D., Olson M.V., Eichler E.E., Green E.D., Waterston R.H., Wilson R.K.
Nature 424:157-164(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[7]Mural R.J., Istrail S., Sutton G.G., Florea L., Halpern A.L., Mobarry C.M., Lippert R., Walenz B., Shatkay H., Dew I., Miller J.R., Flanigan M.J., Edwards N.J., Bolanos R., Fasulo D., Halldorsson B.V., Hannenhalli S., Turner R. expand/collapse author list , Yooseph S., Lu F., Nusskern D.R., Shue B.C., Zheng X.H., Zhong F., Delcher A.L., Huson D.H., Kravitz S.A., Mouchard L., Reinert K., Remington K.A., Clark A.G., Waterman M.S., Eichler E.E., Adams M.D., Hunkapiller M.W., Myers E.W., Venter J.C.
Submitted (JUL-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[8]"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] (ISOFORMS 1; 2 AND 4).
Tissue: Lymphoma, Placenta and Skin.
[9]"A quantitative atlas of mitotic phosphorylation."
Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P.
Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-413, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
Tissue: Cervix carcinoma.
[10]"Mammalian Atg18 (WIPI2) localizes to omegasome-anchored phagophores and positively regulates LC3 lipidation."
Polson H.E., de Lartigue J., Rigden D.J., Reedijk M., Urbe S., Clague M.J., Tooze S.A.
Autophagy 6:506-522(2010) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, ALTERNATIVE SPLICING (ISOFORMS 1; 2; 3; 4; 5 AND 6), PHOSPHOINOSITIDES-BINDING, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
[11]"A Tecpr1-dependent selective autophagy pathway targets bacterial pathogens."
Ogawa M., Yoshikawa Y., Kobayashi T., Mimuro H., Fukumatsu M., Kiga K., Piao Z., Ashida H., Yoshida M., Kakuta S., Koyama T., Goto Y., Nagatake T., Nagai S., Kiyono H., Kawalec M., Reichhart J.M., Sasakawa C.
Cell Host Microbe 9:376-389(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH TECPR1.
[12]"Freeze-fracture replica immunolabelling reveals human WIPI-1 and WIPI-2 as membrane proteins of autophagosomes."
Proikas-Cezanne T., Robenek H.
J. Cell. Mol. Med. 15:2007-2010(2011) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION.
[13]"Dynamic and transient interactions of Atg9 with autophagosomes, but not membrane integration, are required for autophagy."
Orsi A., Razi M., Dooley H.C., Robinson D., Weston A.E., Collinson L.M., Tooze S.A.
Mol. Biol. Cell 23:1860-1873(2012) [PubMed] [Europe PMC] [Abstract]
Cited for: SUBCELLULAR LOCATION.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AY691425 mRNA. Translation: AAV80761.1.
AY691426 mRNA. Translation: AAV80762.1.
AF151808 mRNA. Translation: AAD34045.1.
AL080155 mRNA. Translation: CAB45746.1.
CR533530 mRNA. Translation: CAG38561.1.
AK024279 mRNA. Translation: BAG51284.1.
AC093376 Genomic DNA. Translation: AAQ96865.1.
AC093376 Genomic DNA. Translation: AAQ96866.1.
AC093376 Genomic DNA. Translation: AAQ96867.1.
CH471144 Genomic DNA. Translation: EAW87328.1.
BC004116 mRNA. Translation: AAH04116.1.
BC007596 mRNA. Translation: AAH07596.1.
BC021068 mRNA. No translation available.
BC021200 mRNA. Translation: AAH21200.1.
PIRT12539.
RefSeqNP_001028690.1. NM_001033518.1.
NP_001028691.1. NM_001033519.1.
NP_001028692.1. NM_001033520.1.
NP_001265228.1. NM_001278299.1.
NP_056425.1. NM_015610.3.
NP_057087.2. NM_016003.3.
UniGeneHs.122363.

3D structure databases

ProteinModelPortalQ9Y4P8.
SMRQ9Y4P8. Positions 54-277, 333-360.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid117550. 16 interactions.
IntActQ9Y4P8. 26 interactions.
MINTMINT-1386092.
STRING9606.ENSP00000288828.

PTM databases

PhosphoSiteQ9Y4P8.

Polymorphism databases

DMDM74762063.

Proteomic databases

PaxDbQ9Y4P8.
PRIDEQ9Y4P8.

Protocols and materials databases

DNASU26100.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENST00000288828; ENSP00000288828; ENSG00000157954. [Q9Y4P8-1]
ENST00000382384; ENSP00000371821; ENSG00000157954. [Q9Y4P8-2]
ENST00000401525; ENSP00000384945; ENSG00000157954. [Q9Y4P8-4]
ENST00000404704; ENSP00000385297; ENSG00000157954. [Q9Y4P8-6]
ENST00000484262; ENSP00000429654; ENSG00000157954. [Q9Y4P8-3]
GeneID26100.
KEGGhsa:26100.
UCSCuc003snv.3. human. [Q9Y4P8-1]
uc003snw.3. human. [Q9Y4P8-6]
uc003snx.3. human. [Q9Y4P8-4]
uc003sny.3. human. [Q9Y4P8-2]
uc003soa.3. human. [Q9Y4P8-3]

Organism-specific databases

CTD26100.
GeneCardsGC07P005229.
HGNCHGNC:32225. WIPI2.
HPAHPA019852.
HPA021488.
MIM609225. gene.
neXtProtNX_Q9Y4P8.
PharmGKBPA142670576.
GenAtlasSearch...

Phylogenomic databases

eggNOGNOG317564.
HOGENOMHOG000217544.
HOVERGENHBG056639.
InParanoidQ9Y4P8.
KOK17908.
OMALTEMWEP.
OrthoDBEOG7PS1G4.
PhylomeDBQ9Y4P8.
TreeFamTF314879.

Enzyme and pathway databases

SignaLinkQ9Y4P8.

Gene expression databases

BgeeQ9Y4P8.
CleanExHS_WIPI2.
GenevestigatorQ9Y4P8.

Family and domain databases

Gene3D2.130.10.10. 2 hits.
InterProIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamPF00400. WD40. 1 hit.
[Graphical view]
SMARTSM00320. WD40. 3 hits.
[Graphical view]
SUPFAMSSF50978. SSF50978. 2 hits.
ProtoNetSearch...

Other

ChiTaRSWIPI2. human.
GeneWikiWIPI2.
GenomeRNAi26100.
NextBio48085.
PROQ9Y4P8.
SOURCESearch...

Entry information

Entry nameWIPI2_HUMAN
AccessionPrimary (citable) accession number: Q9Y4P8
Secondary accession number(s): B3KNC2 expand/collapse secondary AC list , Q5MNZ8, Q6FI96, Q75L50, Q96IE4, Q9Y364
Entry history
Integrated into UniProtKB/Swiss-Prot: January 10, 2006
Last sequence update: November 1, 1999
Last modified: April 16, 2014
This is version 116 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (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.

Relevant documents

SIMILARITY comments

Index of protein domains and families

MIM cross-references

Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot

Human chromosome 7

Human chromosome 7: entries, gene names and cross-references to MIM