{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"Q93VH1","secondaryAccessions":["A0A178V3Z0"],"uniProtkbId":"YIP4B_ARATH","entryAudit":{"firstPublicDate":"2020-10-07","lastAnnotationUpdateDate":"2026-09-02","lastSequenceUpdateDate":"2001-12-01","entryVersion":155,"sequenceVersion":1},"annotationScore":5.0,"organism":{"scientificName":"Arabidopsis thaliana","commonName":"Mouse-ear cress","taxonId":3702,"lineage":["Eukaryota","Viridiplantae","Streptophyta","Embryophyta","Tracheophyta","Spermatophyta","Magnoliopsida","eudicotyledons","Gunneridae","Pentapetalae","rosids","malvids","Brassicales","Brassicaceae","Camelineae","Arabidopsis"]},"proteinExistence":"1: Evidence at protein level","proteinDescription":{"recommendedName":{"fullName":{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23832588"}],"value":"Protein YIP4b"}},"alternativeNames":[{"fullName":{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23832588"}],"value":"YPT/RAB GTPase-interacting protein 4b"},"shortNames":[{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23832588"}],"value":"YIP4b"}]}]},"genes":[{"geneName":{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23832588"}],"value":"YIP4B"},"synonyms":[{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23832588"}],"value":"YIP2"}],"orderedLocusNames":[{"evidences":[{"evidenceCode":"ECO:0000312","source":"Araport","id":"AT4G30260"}],"value":"At4g30260"}],"orfNames":[{"evidences":[{"evidenceCode":"ECO:0000312","source":"EMBL","id":"AEE85744.1"}],"value":"F9N11.110"}]}],"comments":[{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23832588"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"30770391"}],"value":"Together with YIP4A, involved in the regulation of cell elongation during root and hypocotyl growth (PubMed:23832588). YIP4A and YIP4B are central trafficking components in Rho-of-plant (ROPs, e.g. ARAC4/ROP2, ARAC5/ROP4 and ARAC3/ROP6) small GTPases-dependent root hair formation, thus contributing to activation and plasma membrane accumulation of ROPs during hair initiation (PubMed:30770391). The ECH/YIP4 complex is involved in the modulation of the trans-Golgi network (TGN)-mediated trafficking of some proteins and cell wall components (e.g. pectin and hemicellulose) to the cell wall in dark-grown hypocotyls and in secretory cells of the seed coat (PubMed:23832588)"}],"commentType":"FUNCTION"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23832588"}],"value":"Homodimer and heterodimer with YIP4A (PubMed:23832588). Component of a trans-Golgi network (TGN)-localized ECH/YIP4 complex made of ECH, YIP4A and YIP4B (PubMed:23832588). Interacts directly with ECH (PubMed:23832588)"}],"commentType":"SUBUNIT"},{"commentType":"INTERACTION","interactions":[{"interactantOne":{"uniProtKBAccession":"Q93VH1","intActId":"EBI-4430553"},"interactantTwo":{"uniProtKBAccession":"Q8GWB3","geneName":"At3g05280","intActId":"EBI-4425753"},"numberOfExperiments":3,"organismDiffer":false}]},{"commentType":"SUBCELLULAR LOCATION","subcellularLocations":[{"location":{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23832588"}],"value":"Golgi apparatus, trans-Golgi network membrane","id":"SL-0267"},"topology":{"evidences":[{"evidenceCode":"ECO:0000255"}],"value":"Multi-pass membrane protein","id":"SL-9909"}}]},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"30770391"}],"value":"Expressed in developing root hair cells"}],"commentType":"TISSUE SPECIFICITY"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"30770391"}],"value":"Ubiquitous expression in elongating root hair and non-hair cells prior to hair formation"}],"commentType":"DEVELOPMENTAL STAGE"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23832588"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"30770391"}],"value":"No visible phenotype (PubMed:23832588). The double mutant yip4a yip4b exhibits disturbed trans-Golgi network (TGN)-Golgi association and cell elongation defects leading to reduced roots and hypocotyls growth associated with an abnormal cell wall composition and a mislocalization of trans-Golgi network (TGN)-localized proteins SYP61 and VHA-a1 (PubMed:23832588, PubMed:30770391). The double mutant yip4a yip4b also has a reduced number of root trichoblasts displaying Rho-of-plant (ROPs e.g. ARAC4/ROP2, ARAC5/ROP4 and ARAC3/ROP6) patches and leading to an almost complete absence of root hairs (PubMed:30770391)"}],"commentType":"DISRUPTION PHENOTYPE"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"Belongs to the YIP1 family"}],"commentType":"SIMILARITY"}],"features":[{"type":"Chain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":280,"modifier":"EXACT"}},"description":"Protein YIP4b","featureId":"PRO_0000450870"},{"type":"Topological domain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":146,"modifier":"EXACT"}},"description":"Cytoplasmic","evidences":[{"evidenceCode":"ECO:0000305"}]},{"type":"Transmembrane","location":{"start":{"value":147,"modifier":"EXACT"},"end":{"value":167,"modifier":"EXACT"}},"description":"Helical","evidences":[{"evidenceCode":"ECO:0000255"}]},{"type":"Topological domain","location":{"start":{"value":168,"modifier":"EXACT"},"end":{"value":171,"modifier":"EXACT"}},"description":"Lumenal","evidences":[{"evidenceCode":"ECO:0000305"}]},{"type":"Transmembrane","location":{"start":{"value":172,"modifier":"EXACT"},"end":{"value":192,"modifier":"EXACT"}},"description":"Helical","evidences":[{"evidenceCode":"ECO:0000255"}]},{"type":"Transmembrane","location":{"start":{"value":193,"modifier":"EXACT"},"end":{"value":213,"modifier":"EXACT"}},"description":"Helical","evidences":[{"evidenceCode":"ECO:0000255"}]},{"type":"Topological domain","location":{"start":{"value":214,"modifier":"EXACT"},"end":{"value":230,"modifier":"EXACT"}},"description":"Lumenal","evidences":[{"evidenceCode":"ECO:0000305"}]},{"type":"Transmembrane","location":{"start":{"value":231,"modifier":"EXACT"},"end":{"value":251,"modifier":"EXACT"}},"description":"Helical","evidences":[{"evidenceCode":"ECO:0000255"}]},{"type":"Topological domain","location":{"start":{"value":252,"modifier":"EXACT"},"end":{"value":258,"modifier":"EXACT"}},"description":"Cytoplasmic","evidences":[{"evidenceCode":"ECO:0000305"}]},{"type":"Transmembrane","location":{"start":{"value":259,"modifier":"EXACT"},"end":{"value":279,"modifier":"EXACT"}},"description":"Helical","evidences":[{"evidenceCode":"ECO:0000255"}]},{"type":"Topological domain","location":{"start":{"value":280,"modifier":"EXACT"},"end":{"value":280,"modifier":"EXACT"}},"description":"Lumenal","evidences":[{"evidenceCode":"ECO:0000305"}]},{"type":"Region","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":106,"modifier":"EXACT"}},"description":"Disordered","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Compositional bias","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":15,"modifier":"EXACT"}},"description":"Polar residues","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]}],"keywords":[{"id":"KW-0961","category":"Biological process","name":"Cell wall biogenesis/degradation"},{"id":"KW-0333","category":"Cellular component","name":"Golgi apparatus"},{"id":"KW-0472","category":"Cellular component","name":"Membrane"},{"id":"KW-0653","category":"Biological process","name":"Protein transport"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"},{"id":"KW-0812","category":"Domain","name":"Transmembrane"},{"id":"KW-1133","category":"Domain","name":"Transmembrane helix"},{"id":"KW-0813","category":"Biological process","name":"Transport"}],"references":[{"referenceNumber":1,"citation":{"id":"27862469","citationType":"journal article","authors":["Cheng C.Y.","Krishnakumar V.","Chan A.P.","Thibaud-Nissen F.","Schobel S.","Town C.D."],"citationCrossReferences":[{"database":"PubMed","id":"27862469"},{"database":"DOI","id":"10.1111/tpj.13415"}],"title":"Araport11: a complete reannotation of the Arabidopsis thaliana reference genome.","publicationDate":"2017","journal":"Plant J.","firstPage":"789","lastPage":"804","volume":"89"},"referencePositions":["GENOME REANNOTATION"],"referenceComments":[{"value":"cv. Columbia","type":"STRAIN"}]},{"referenceNumber":2,"citation":{"id":"CI-CI4AM1G71UC0S","citationType":"submission","authoringGroup":["The Arabidopsis Information Resource (TAIR)"],"title":"Community-consensus reference genome of Arabidopsis thaliana Col-0.","publicationDate":"FEB-2026","submissionDatabase":"EMBL/GenBank/DDBJ databases"},"referencePositions":["GENOME REANNOTATION"],"referenceComments":[{"value":"cv. Columbia","type":"STRAIN"}]},{"referenceNumber":3,"citation":{"id":"14593172","citationType":"journal article","authors":["Yamada K.","Lim J.","Dale J.M.","Chen H.","Shinn P.","Palm C.J.","Southwick A.M.","Wu H.C.","Kim C.J.","Nguyen M.","Pham P.K.","Cheuk R.F.","Karlin-Newmann G.","Liu S.X.","Lam B.","Sakano H.","Wu T.","Yu G.","Miranda M.","Quach H.L.","Tripp M.","Chang C.H.","Lee J.M.","Toriumi M.J.","Chan M.M.","Tang C.C.","Onodera C.S.","Deng J.M.","Akiyama K.","Ansari Y.","Arakawa T.","Banh J.","Banno F.","Bowser L.","Brooks S.Y.","Carninci P.","Chao Q.","Choy N.","Enju A.","Goldsmith A.D.","Gurjal M.","Hansen N.F.","Hayashizaki Y.","Johnson-Hopson C.","Hsuan V.W.","Iida K.","Karnes M.","Khan S.","Koesema E.","Ishida J.","Jiang P.X.","Jones T.","Kawai J.","Kamiya A.","Meyers C.","Nakajima M.","Narusaka M.","Seki M.","Sakurai T.","Satou M.","Tamse R.","Vaysberg M.","Wallender E.K.","Wong C.","Yamamura Y.","Yuan S.","Shinozaki K.","Davis R.W.","Theologis A.","Ecker J.R."],"citationCrossReferences":[{"database":"PubMed","id":"14593172"},{"database":"DOI","id":"10.1126/science.1088305"}],"title":"Empirical analysis of transcriptional activity in the Arabidopsis genome.","publicationDate":"2003","journal":"Science","firstPage":"842","lastPage":"846","volume":"302"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]"],"referenceComments":[{"value":"cv. Columbia","type":"STRAIN"}]},{"referenceNumber":4,"citation":{"id":"23832588","citationType":"journal article","authors":["Gendre D.","McFarlane H.E.","Johnson E.","Mouille G.","Sjoedin A.","Oh J.","Levesque-Tremblay G.","Watanabe Y.","Samuels L.","Bhalerao R.P."],"citationCrossReferences":[{"database":"PubMed","id":"23832588"},{"database":"DOI","id":"10.1105/tpc.113.112482"}],"title":"Trans-Golgi network localized ECHIDNA/Ypt interacting protein complex is required for the secretion of cell wall polysaccharides in Arabidopsis.","publicationDate":"2013","journal":"Plant Cell","firstPage":"2633","lastPage":"2646","volume":"25"},"referencePositions":["FUNCTION","DISRUPTION PHENOTYPE","SUBCELLULAR LOCATION","SUBUNIT","INTERACTION WITH YIP4A AND ECH"],"referenceComments":[{"value":"cv. Columbia","type":"STRAIN"}]},{"referenceNumber":5,"citation":{"id":"30770391","citationType":"journal article","authors":["Gendre D.","Baral A.","Dang X.","Esnay N.","Boutte Y.","Stanislas T.","Vain T.","Claverol S.","Gustavsson A.","Lin D.","Grebe M.","Bhalerao R.P."],"citationCrossReferences":[{"database":"PubMed","id":"30770391"},{"database":"DOI","id":"10.1242/dev.168559"}],"title":"Rho-of-plant activated root hair formation requires Arabidopsis YIP4a/b gene function.","publicationDate":"2019","journal":"Development","firstPage":"0","lastPage":"0","volume":"146"},"referencePositions":["FUNCTION","DISRUPTION PHENOTYPE","TISSUE SPECIFICITY","DEVELOPMENTAL STAGE"],"referenceComments":[{"value":"cv. Columbia","type":"STRAIN"}]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"CP002687","properties":[{"key":"ProteinId","value":"AEE85744.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"CP002687","properties":[{"key":"ProteinId","value":"ANM67107.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"OZ408686","properties":[{"key":"ProteinId","value":"-"},{"key":"Status","value":"NOT_ANNOTATED_CDS"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"AY045675","properties":[{"key":"ProteinId","value":"AAK74033.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"EMBL","id":"AY056083","properties":[{"key":"ProteinId","value":"AAL06971.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"EMBL","id":"AY093179","properties":[{"key":"ProteinId","value":"AAM13178.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"RefSeq","id":"NP_001320089.1","properties":[{"key":"NucleotideSequenceId","value":"NM_001342003.1"}]},{"database":"RefSeq","id":"NP_567843.1","properties":[{"key":"NucleotideSequenceId","value":"NM_119172.4"}]},{"database":"AlphaFoldDB","id":"Q93VH1","properties":[{"key":"Description","value":"-"}]},{"database":"FunCoup","id":"Q93VH1","properties":[{"key":"Number of interactors","value":"4128"}]},{"database":"IntAct","id":"Q93VH1","properties":[{"key":"Interactions","value":"6"}]},{"database":"ProteomicsDB","id":"185664","properties":[{"key":"Description","value":"-"}]},{"database":"GeneID","id":"829149","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"ath:AT4G30260","properties":[{"key":"Description","value":"-"}]},{"database":"Araport","id":"AT4G30260","properties":[{"key":"Description","value":"-"}]},{"database":"TAIR","id":"AT4G30260","properties":[{"key":"GeneName","value":"YIP4B"}]},{"database":"HOGENOM","id":"CLU_059592_2_1_1","properties":[{"key":"Description","value":"-"}]},{"database":"InParanoid","id":"Q93VH1","properties":[{"key":"Description","value":"-"}]},{"database":"OMA","id":"IKFYHVL","properties":[{"key":"Fingerprint","value":"-"}]},{"database":"OrthoDB","id":"411251at2759","properties":[{"key":"Description","value":"-"}]},{"database":"PRO","id":"PR:Q93VH1","properties":[{"key":"Description","value":"-"}]},{"database":"Proteomes","id":"UP000006548","properties":[{"key":"Component","value":"Chromosome 4"}]},{"database":"ExpressionAtlas","id":"Q93VH1","properties":[{"key":"ExpressionPatterns","value":"baseline and differential"}]},{"database":"GO","id":"GO:0005768","properties":[{"key":"GoTerm","value":"C:endosome"},{"key":"GoEvidenceType","value":"HDA:TAIR"}],"evidences":[{"evidenceCode":"ECO:0007005","source":"PubMed","id":"22923678"}]},{"database":"GO","id":"GO:0005794","properties":[{"key":"GoTerm","value":"C:Golgi apparatus"},{"key":"GoEvidenceType","value":"HDA:TAIR"}],"evidences":[{"evidenceCode":"ECO:0007005","source":"PubMed","id":"22430844"},{"evidenceCode":"ECO:0007005","source":"PubMed","id":"22923678"},{"evidenceCode":"ECO:0007005","source":"PubMed","id":"25122472"}]},{"database":"GO","id":"GO:0005634","properties":[{"key":"GoTerm","value":"C:nucleus"},{"key":"GoEvidenceType","value":"ISM:TAIR"}]},{"database":"GO","id":"GO:0005886","properties":[{"key":"GoTerm","value":"C:plasma membrane"},{"key":"GoEvidenceType","value":"HDA:TAIR"}],"evidences":[{"evidenceCode":"ECO:0007005","source":"PubMed","id":"15060130"},{"evidenceCode":"ECO:0007005","source":"PubMed","id":"28887381"}]},{"database":"GO","id":"GO:0005802","properties":[{"key":"GoTerm","value":"C:trans-Golgi network"},{"key":"GoEvidenceType","value":"IDA:TAIR"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0032588","properties":[{"key":"GoTerm","value":"C:trans-Golgi network membrane"},{"key":"GoEvidenceType","value":"IDA:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0042803","properties":[{"key":"GoTerm","value":"F:protein homodimerization activity"},{"key":"GoEvidenceType","value":"IDA:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0006888","properties":[{"key":"GoTerm","value":"P:endoplasmic reticulum to Golgi vesicle-mediated transport"},{"key":"GoEvidenceType","value":"IEA:InterPro"}]},{"database":"GO","id":"GO:0045489","properties":[{"key":"GoTerm","value":"P:pectin biosynthetic process"},{"key":"GoEvidenceType","value":"IMP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0099402","properties":[{"key":"GoTerm","value":"P:plant organ development"},{"key":"GoEvidenceType","value":"IMP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0052324","properties":[{"key":"GoTerm","value":"P:plant-type cell wall cellulose biosynthetic process"},{"key":"GoEvidenceType","value":"IMP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0015774","properties":[{"key":"GoTerm","value":"P:polysaccharide transport"},{"key":"GoEvidenceType","value":"IGI:TAIR"}],"evidences":[{"evidenceCode":"ECO:0000316","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0051223","properties":[{"key":"GoTerm","value":"P:regulation of protein transport"},{"key":"GoEvidenceType","value":"IMP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"30770391"}]},{"database":"GO","id":"GO:0048364","properties":[{"key":"GoTerm","value":"P:root development"},{"key":"GoEvidenceType","value":"IMP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23832588"}]},{"database":"GO","id":"GO:0048766","properties":[{"key":"GoTerm","value":"P:root hair initiation"},{"key":"GoEvidenceType","value":"IMP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"30770391"}]},{"database":"GO","id":"GO:0009826","properties":[{"key":"GoTerm","value":"P:unidimensional cell growth"},{"key":"GoEvidenceType","value":"IMP:UniProtKB"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23832588"}]},{"database":"InterPro","id":"IPR045231","properties":[{"key":"EntryName","value":"Yip1/4-like"}]},{"database":"InterPro","id":"IPR006977","properties":[{"key":"EntryName","value":"Yip1_dom"}]},{"database":"PANTHER","id":"PTHR21236","properties":[{"key":"EntryName","value":"GOLGI MEMBRANE PROTEIN YIP1"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR21236:SF1","properties":[{"key":"EntryName","value":"PROTEIN YIPF6"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF04893","properties":[{"key":"EntryName","value":"Yip1"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MSHNDTIPLYQSSQSDIDEIENMMNDSFQSGPGTVLPARPPSPIRPSIPVSSSPFVQSNLPPLPPSSSSSTQKVMPVPAPPPLPSAGNEGNKSIGGSGFGSPPNTLTEPVWDTVKRDLSRIVSNLKLVVFPNPYREDPGKALRDWDLWGPFFFIVFLGLTLSWSASVKKSEVFAVAFALLAAGAVILTLNVLLLGGHIIFFQSLSLLGYCLFPLDVGAVICMLKDNVILKMVVVSVTLAWSSWAAYPFMSAAVNPRRKALALYPVFLMYVSVGFLIIAIN","length":280,"molWeight":30220,"crc64":"BB77E23AC2715D7B","md5":"FD4F6D070FF949A5E78AF2905E4649E2"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"SUBUNIT":1,"INTERACTION":1,"SUBCELLULAR LOCATION":1,"TISSUE SPECIFICITY":1,"DEVELOPMENTAL STAGE":1,"DISRUPTION PHENOTYPE":1,"SIMILARITY":1},"countByFeatureType":{"Chain":1,"Topological domain":5,"Transmembrane":5,"Region":1,"Compositional bias":1},"uniParcId":"UPI00000AC742"}}