{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"Q8S8M9","secondaryAccessions":["F4IQE0","Q8LAH0"],"uniProtkbId":"ALFL6_ARATH","entryAudit":{"firstPublicDate":"2011-09-21","lastAnnotationUpdateDate":"2026-09-02","lastSequenceUpdateDate":"2002-06-01","entryVersion":145,"sequenceVersion":1},"annotationScore":4.0,"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":{"value":"PHD finger protein ALFIN-LIKE 6"},"shortNames":[{"value":"Protein AL6"}]}},"genes":[{"geneName":{"value":"AL6"},"orderedLocusNames":[{"value":"At2g02470"}],"orfNames":[{"value":"T16F16.26"}]}],"comments":[{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250"}],"value":"Histone-binding component that specifically recognizes H3 tails trimethylated on 'Lys-4' (H3K4me3), which mark transcription start sites of virtually all active genes"}],"commentType":"FUNCTION"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250"}],"value":"Interacts with H3K4me3 and to a lesser extent with H3K4me2"}],"commentType":"SUBUNIT"},{"commentType":"INTERACTION","interactions":[{"interactantOne":{"uniProtKBAccession":"Q8S8M9-2","intActId":"EBI-15223069"},"interactantTwo":{"uniProtKBAccession":"Q8GXR6","geneName":"At3g58630/F14P22_220","intActId":"EBI-4457957"},"numberOfExperiments":3,"organismDiffer":false}]},{"commentType":"SUBCELLULAR LOCATION","subcellularLocations":[{"location":{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19154204"}],"value":"Nucleus","id":"SL-0191"}}]},{"commentType":"ALTERNATIVE PRODUCTS","events":["Alternative splicing"],"isoforms":[{"name":{"value":"1"},"isoformIds":["Q8S8M9-1"],"isoformSequenceStatus":"Displayed"},{"name":{"value":"2"},"isoformIds":["Q8S8M9-2"],"sequenceIds":["VSP_041817"],"isoformSequenceStatus":"Described"}]},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19154204"}],"value":"Ubiquitously expressed"}],"commentType":"TISSUE SPECIFICITY"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250"}],"value":"The PHD-type zinc finger mediates the binding to H3K4me3"}],"commentType":"DOMAIN"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"May be due to a competing acceptor splice site"}],"commentType":"MISCELLANEOUS","molecule":"Isoform 2"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"Belongs to the Alfin family"}],"commentType":"SIMILARITY"}],"features":[{"type":"Chain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":256,"modifier":"EXACT"}},"description":"PHD finger protein ALFIN-LIKE 6","featureId":"PRO_0000412933"},{"type":"Zinc finger","location":{"start":{"value":200,"modifier":"EXACT"},"end":{"value":252,"modifier":"EXACT"}},"description":"PHD-type","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU00146"}]},{"type":"Region","location":{"start":{"value":144,"modifier":"EXACT"},"end":{"value":200,"modifier":"EXACT"}},"description":"Disordered","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Compositional bias","location":{"start":{"value":146,"modifier":"EXACT"},"end":{"value":163,"modifier":"EXACT"}},"description":"Low complexity","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Compositional bias","location":{"start":{"value":182,"modifier":"EXACT"},"end":{"value":199,"modifier":"EXACT"}},"description":"Acidic residues","evidences":[{"evidenceCode":"ECO:0000256","source":"SAM","id":"MobiDB-lite"}]},{"type":"Site","location":{"start":{"value":210,"modifier":"EXACT"},"end":{"value":210,"modifier":"EXACT"}},"description":"Histone H3K4me3 binding","evidences":[{"evidenceCode":"ECO:0000250"}]},{"type":"Site","location":{"start":{"value":216,"modifier":"EXACT"},"end":{"value":216,"modifier":"EXACT"}},"description":"Histone H3K4me3 binding","evidences":[{"evidenceCode":"ECO:0000250"}]},{"type":"Site","location":{"start":{"value":220,"modifier":"EXACT"},"end":{"value":220,"modifier":"EXACT"}},"description":"Histone H3K4me3 binding","evidences":[{"evidenceCode":"ECO:0000250"}]},{"type":"Site","location":{"start":{"value":225,"modifier":"EXACT"},"end":{"value":225,"modifier":"EXACT"}},"description":"Histone H3K4me3 binding","evidences":[{"evidenceCode":"ECO:0000250"}]},{"type":"Alternative sequence","location":{"start":{"value":162,"modifier":"EXACT"},"end":{"value":170,"modifier":"EXACT"}},"description":"in isoform 2","evidences":[{"evidenceCode":"ECO:0000305"}],"featureId":"VSP_041817","alternativeSequence":{}},{"type":"Sequence conflict","location":{"start":{"value":170,"modifier":"EXACT"},"end":{"value":170,"modifier":"EXACT"}},"description":"in Ref. 5; AAM65374","evidences":[{"evidenceCode":"ECO:0000305"}],"alternativeSequence":{"originalSequence":"S","alternativeSequences":["T"]}}],"keywords":[{"id":"KW-0025","category":"Coding sequence diversity","name":"Alternative splicing"},{"id":"KW-0156","category":"Molecular function","name":"Chromatin regulator"},{"id":"KW-0479","category":"Ligand","name":"Metal-binding"},{"id":"KW-0539","category":"Cellular component","name":"Nucleus"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"},{"id":"KW-0804","category":"Biological process","name":"Transcription"},{"id":"KW-0805","category":"Biological process","name":"Transcription regulation"},{"id":"KW-0862","category":"Ligand","name":"Zinc"},{"id":"KW-0863","category":"Domain","name":"Zinc-finger"}],"references":[{"referenceNumber":1,"citation":{"id":"10617197","citationType":"journal article","authors":["Lin X.","Kaul S.","Rounsley S.D.","Shea T.P.","Benito M.-I.","Town C.D.","Fujii C.Y.","Mason T.M.","Bowman C.L.","Barnstead M.E.","Feldblyum T.V.","Buell C.R.","Ketchum K.A.","Lee J.J.","Ronning C.M.","Koo H.L.","Moffat K.S.","Cronin L.A.","Shen M.","Pai G.","Van Aken S.","Umayam L.","Tallon L.J.","Gill J.E.","Adams M.D.","Carrera A.J.","Creasy T.H.","Goodman H.M.","Somerville C.R.","Copenhaver G.P.","Preuss D.","Nierman W.C.","White O.","Eisen J.A.","Salzberg S.L.","Fraser C.M.","Venter J.C."],"citationCrossReferences":[{"database":"PubMed","id":"10617197"},{"database":"DOI","id":"10.1038/45471"}],"title":"Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.","publicationDate":"1999","journal":"Nature","firstPage":"761","lastPage":"768","volume":"402"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]"],"referenceComments":[{"value":"cv. Columbia","type":"STRAIN"}]},{"referenceNumber":2,"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":3,"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":4,"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] (ISOFORM 1)"],"referenceComments":[{"value":"cv. Columbia","type":"STRAIN"}]},{"referenceNumber":5,"citation":{"id":"CI-3TH3AFLAVIRO9","citationType":"submission","authors":["Brover V.V.","Troukhan M.E.","Alexandrov N.A.","Lu Y.-P.","Flavell R.B.","Feldmann K.A."],"title":"Full-length cDNA from Arabidopsis thaliana.","publicationDate":"MAR-2002","submissionDatabase":"EMBL/GenBank/DDBJ databases"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1)"]},{"referenceNumber":6,"citation":{"id":"19154204","citationType":"journal article","authors":["Lee W.Y.","Lee D.","Chung W.I.","Kwon C.S."],"citationCrossReferences":[{"database":"PubMed","id":"19154204"},{"database":"DOI","id":"10.1111/j.1365-313x.2009.03795.x"}],"title":"Arabidopsis ING and Alfin1-like protein families localize to the nucleus and bind to H3K4me3/2 via plant homeodomain fingers.","publicationDate":"2009","journal":"Plant J.","firstPage":"511","lastPage":"524","volume":"58"},"referencePositions":["GENE FAMILY","SUBCELLULAR LOCATION","TISSUE SPECIFICITY"]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"AC005312","properties":[{"key":"ProteinId","value":"AAM15031.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"CP002685","properties":[{"key":"ProteinId","value":"AEC05583.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"CP002685","properties":[{"key":"ProteinId","value":"AEC05584.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"OZ408684","properties":[{"key":"ProteinId","value":"CAO7034348.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"OZ408684","properties":[{"key":"ProteinId","value":"CAO7034349.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"BT003905","properties":[{"key":"ProteinId","value":"AAO41953.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"EMBL","id":"BT005004","properties":[{"key":"ProteinId","value":"AAO50537.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"EMBL","id":"AY087820","properties":[{"key":"ProteinId","value":"AAM65374.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"PIR","id":"A84437","properties":[{"key":"EntryName","value":"A84437"}]},{"database":"PIR","id":"T00616","properties":[{"key":"EntryName","value":"T00616"}]},{"database":"RefSeq","id":"NP_001189502.1","properties":[{"key":"NucleotideSequenceId","value":"NM_001202573.2"}],"isoformId":"Q8S8M9-2"},{"database":"RefSeq","id":"NP_178351.1","properties":[{"key":"NucleotideSequenceId","value":"NM_126302.3"}],"isoformId":"Q8S8M9-1"},{"database":"AlphaFoldDB","id":"Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"SMR","id":"Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"BioGRID","id":"179","properties":[{"key":"Interactions","value":"12"}]},{"database":"FunCoup","id":"Q8S8M9","properties":[{"key":"Number of interactors","value":"1051"}]},{"database":"IntAct","id":"Q8S8M9","properties":[{"key":"Interactions","value":"3"}]},{"database":"STRING","id":"3702.Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"iPTMnet","id":"Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"PaxDb","id":"3702-Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"ProteomicsDB","id":"245068","properties":[{"key":"Description","value":"-"}],"isoformId":"Q8S8M9-1"},{"database":"GeneID","id":"814776","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"ath:AT2G02470","properties":[{"key":"Description","value":"-"}]},{"database":"Araport","id":"AT2G02470","properties":[{"key":"Description","value":"-"}]},{"database":"TAIR","id":"AT2G02470","properties":[{"key":"GeneName","value":"AL6"}]},{"database":"eggNOG","id":"KOG1632","properties":[{"key":"ToxonomicScope","value":"Eukaryota"}]},{"database":"InParanoid","id":"Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"OMA","id":"PSKMVKM","properties":[{"key":"Fingerprint","value":"-"}]},{"database":"PhylomeDB","id":"Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"CD-CODE","id":"4299E36E","properties":[{"key":"EntryName","value":"Nucleolus"}]},{"database":"PRO","id":"PR:Q8S8M9","properties":[{"key":"Description","value":"-"}]},{"database":"Proteomes","id":"UP000006548","properties":[{"key":"Component","value":"Chromosome 2"}]},{"database":"ExpressionAtlas","id":"Q8S8M9","properties":[{"key":"ExpressionPatterns","value":"baseline and differential"}]},{"database":"GO","id":"GO:0005739","properties":[{"key":"GoTerm","value":"C:mitochondrion"},{"key":"GoEvidenceType","value":"ISM:TAIR"}]},{"database":"GO","id":"GO:0005634","properties":[{"key":"GoTerm","value":"C:nucleus"},{"key":"GoEvidenceType","value":"IDA:TAIR"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"19154204"}]},{"database":"GO","id":"GO:0042393","properties":[{"key":"GoTerm","value":"F:histone binding"},{"key":"GoEvidenceType","value":"IEA:InterPro"}]},{"database":"GO","id":"GO:0000976","properties":[{"key":"GoTerm","value":"F:transcription cis-regulatory region binding"},{"key":"GoEvidenceType","value":"IPI:TAIR"}],"evidences":[{"evidenceCode":"ECO:0000353","source":"PubMed","id":"25533953"},{"evidenceCode":"ECO:0000353","source":"PubMed","id":"31806676"}]},{"database":"GO","id":"GO:0016036","properties":[{"key":"GoTerm","value":"P:cellular response to phosphate starvation"},{"key":"GoEvidenceType","value":"IMP:TAIR"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23432399"}]},{"database":"GO","id":"GO:0030003","properties":[{"key":"GoTerm","value":"P:intracellular monoatomic cation homeostasis"},{"key":"GoEvidenceType","value":"IMP:TAIR"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23432399"}]},{"database":"GO","id":"GO:0006355","properties":[{"key":"GoTerm","value":"P:regulation of DNA-templated transcription"},{"key":"GoEvidenceType","value":"IEA:InterPro"}]},{"database":"GO","id":"GO:0048767","properties":[{"key":"GoTerm","value":"P:root hair elongation"},{"key":"GoEvidenceType","value":"IMP:TAIR"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"23432399"}]},{"database":"CDD","id":"cd15613","properties":[{"key":"EntryName","value":"PHD_AL_plant"},{"key":"MatchStatus","value":"1"}]},{"database":"FunFam","id":"3.30.40.10:FF:000306","properties":[{"key":"EntryName","value":"PHD finger alfin-like protein"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"3.30.40.10","properties":[{"key":"EntryName","value":"Zinc/RING finger domain, C3HC4 (zinc finger)"},{"key":"MatchStatus","value":"1"}]},{"database":"InterPro","id":"IPR045104","properties":[{"key":"EntryName","value":"Alfin"}]},{"database":"InterPro","id":"IPR021998","properties":[{"key":"EntryName","value":"Alfin_N"}]},{"database":"InterPro","id":"IPR044104","properties":[{"key":"EntryName","value":"PHD_AL_plant"}]},{"database":"InterPro","id":"IPR019786","properties":[{"key":"EntryName","value":"Zinc_finger_PHD-type_CS"}]},{"database":"InterPro","id":"IPR011011","properties":[{"key":"EntryName","value":"Znf_FYVE_PHD"}]},{"database":"InterPro","id":"IPR001965","properties":[{"key":"EntryName","value":"Znf_PHD"}]},{"database":"InterPro","id":"IPR019787","properties":[{"key":"EntryName","value":"Znf_PHD-finger"}]},{"database":"InterPro","id":"IPR013083","properties":[{"key":"EntryName","value":"Znf_RING/FYVE/PHD"}]},{"database":"PANTHER","id":"PTHR12321","properties":[{"key":"EntryName","value":"CPG BINDING PROTEIN"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR12321:SF60","properties":[{"key":"EntryName","value":"PHD FINGER PROTEIN ALFIN-LIKE 6"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF12165","properties":[{"key":"EntryName","value":"Alfin"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF00628","properties":[{"key":"EntryName","value":"PHD"},{"key":"MatchStatus","value":"1"}]},{"database":"SMART","id":"SM00249","properties":[{"key":"EntryName","value":"PHD"},{"key":"MatchStatus","value":"1"}]},{"database":"SUPFAM","id":"SSF57903","properties":[{"key":"EntryName","value":"FYVE/PHD zinc finger"},{"key":"MatchStatus","value":"1"}]},{"database":"PROSITE","id":"PS01359","properties":[{"key":"EntryName","value":"ZF_PHD_1"},{"key":"MatchStatus","value":"1"}]},{"database":"PROSITE","id":"PS50016","properties":[{"key":"EntryName","value":"ZF_PHD_2"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MEGITHPIPRTVEEVFSDFRGRRAGLIKALTNDMVKFYQTCDPEKENLCLYGLPNETWEVNLPVEEVPPELPEPALGINFARDGMQEKDWVSLVAVHSDSWLLSVAFYFGARFGFGKNERKRLFQMINELPTIFEVVSGNAKQSKDLSVNNNNSKSKPSGVKSRQSESLSKVAKMSSPPPKEEEEEEDESEDESEDDEQGAVCGACGDNYGTDEFWICCDACEKWFHGKCVKITPAKAEHIKHYKCPTCSNKRARP","length":256,"molWeight":28847,"crc64":"9A033A5355BE4953","md5":"CD3978A798E5C5160569841467F0C079"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"SUBUNIT":1,"INTERACTION":1,"SUBCELLULAR LOCATION":1,"ALTERNATIVE PRODUCTS":2,"TISSUE SPECIFICITY":1,"DOMAIN":1,"MISCELLANEOUS":1,"SIMILARITY":1},"countByFeatureType":{"Chain":1,"Zinc finger":1,"Region":1,"Compositional bias":2,"Site":4,"Alternative sequence":1,"Sequence conflict":1},"uniParcId":"UPI000000C1D4"}}