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Q9D8M7

- PHF10_MOUSE

UniProt

Q9D8M7 - PHF10_MOUSE

Protein

PHD finger protein 10

Gene

Phf10

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 104 (01 Oct 2014)
      Sequence version 4 (27 Jul 2011)
      Previous versions | rss
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    Functioni

    Involved in transcription activity regulation by chromatin remodeling. Belongs to the neural progenitors-specific chromatin remodeling complex (npBAF complex) and is required for the proliferation of neural progenitors. During neural development a switch from a stem/progenitor to a post-mitotic chromatin remodeling mechanism occurs as neurons exit the cell cycle and become committed to their adult state. The transition from proliferating neural stem/progenitor cells to post-mitotic neurons requires a switch in subunit composition of the npBAF and nBAF complexes. As neural progenitors exit mitosis and differentiate into neurons, npBAF complexes which contain ACTL6A/BAF53A and PHF10/BAF45A, are exchanged for homologous alternative ACTL6B/BAF53B and DPF1/BAF45B or DPF3/BAF45C subunits in neuron-specific complexes (nBAF). The npBAF complex is essential for the self-renewal/proliferative capacity of the multipotent neural stem cells. The nBAF complex along with CREST plays a role regulating the activity of genes essential for dendrite growth.1 Publication

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri378 – 43558PHD-type 1; degeneratePROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri437 – 48044PHD-type 2; degeneratePROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. protein binding Source: UniProtKB
    2. zinc ion binding Source: InterPro

    GO - Biological processi

    1. nervous system development Source: UniProtKB
    2. regulation of transcription, DNA-templated Source: UniProtKB-KW
    3. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Biological processi

    Neurogenesis, Transcription, Transcription regulation

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    PHD finger protein 10
    Alternative name(s):
    BRG1-associated factor 45a
    Short name:
    BAF45a
    Gene namesi
    Name:Phf10
    Synonyms:Baf45a
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Unplaced

    Organism-specific databases

    MGIiMGI:1919307. Phf10.

    Subcellular locationi

    Nucleus By similarity

    GO - Cellular componenti

    1. npBAF complex Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 497497PHD finger protein 10PRO_0000059298Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei11 – 111PhosphoserineBy similarity
    Modified residuei35 – 351PhosphoserineBy similarity
    Modified residuei49 – 491PhosphoserineBy similarity
    Modified residuei269 – 2691PhosphoserineBy similarity
    Modified residuei296 – 2961PhosphoserineBy similarity
    Modified residuei300 – 3001PhosphoserineBy similarity
    Modified residuei326 – 3261Phosphoserine1 Publication

    Keywords - PTMi

    Phosphoprotein

    Proteomic databases

    MaxQBiQ9D8M7.
    PRIDEiQ9D8M7.

    PTM databases

    PhosphoSiteiQ9D8M7.

    Expressioni

    Tissue specificityi

    Widely expressed. Expressed selectively in neural stem and progenitor cells (at protein level).1 Publication

    Developmental stagei

    Expressed in neural cells at 10.5-11.5 dpc. At 10.5 to 16.5 dpc, in the developing spinal cord, specifically expressed in proliferating neural progenitors of the ventricular zone. In the developing forebrain and cerebellar primordium, expression is restricted to proliferating neuroepithelial progenitors and cerebellar granule precursors.1 Publication

    Gene expression databases

    BgeeiQ9D8M7.
    CleanExiMM_PHF10.
    GenevestigatoriQ9D8M7.

    Interactioni

    Subunit structurei

    Component of neural progenitors-specific chromatin remodeling complex (npBAF complex) composed of at least, ARID1A/BAF250A or ARID1B/BAF250B, SMARCD1/BAF60A, SMARCD3/BAF60C, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A, SMARCB1/BAF47, SMARCC1/BAF155, SMARCE1/BAF57, SMARCC2/BAF170, PHF10/BAF45A, ACTL6A/BAF53A and actin. Interacts with ACTL6A/BAF53A, SMARCA2/BRM/BAF190B, SMARCA4/BRG1/BAF190A and PBRM1/BAF180.1 Publication

    Protein-protein interaction databases

    BioGridi215123. 2 interactions.
    IntActiQ9D8M7. 1 interaction.
    MINTiMINT-4127642.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9D8M7.
    SMRiQ9D8M7. Positions 375-478.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni88 – 294207SAYAdd
    BLAST
    Regioni88 – 18497Essential to induce neural progenitor proliferationAdd
    BLAST
    Regioni291 – 33343Essential to induce neural progenitor proliferationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the SAYP family.Curated
    Contains 2 PHD-type zinc fingers.PROSITE-ProRule annotation

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri378 – 43558PHD-type 1; degeneratePROSITE-ProRule annotationAdd
    BLAST
    Zinc fingeri437 – 48044PHD-type 2; degeneratePROSITE-ProRule annotationAdd
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiNOG279558.
    HOGENOMiHOG000286026.
    HOVERGENiHBG053581.
    InParanoidiQ9D8M7.

    Family and domain databases

    Gene3Di3.30.40.10. 2 hits.
    InterProiIPR011011. Znf_FYVE_PHD.
    IPR001965. Znf_PHD.
    IPR019787. Znf_PHD-finger.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view]
    PfamiPF00628. PHD. 1 hit.
    [Graphical view]
    SMARTiSM00249. PHD. 2 hits.
    [Graphical view]
    SUPFAMiSSF57903. SSF57903. 2 hits.
    PROSITEiPS01359. ZF_PHD_1. 1 hit.
    PS50016. ZF_PHD_2. 2 hits.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q9D8M7-1) [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

    MTAAGPGAAP SPGRCDSDPA SPGAQSPKDD NEDNSNDGTH PCKRRRMGSG    50
    DSSRSCETSS QDLSFSYYPA ENLIEYKWPP DETGEYYMLQ EQVSEYLGVT 100
    SFKRKYPDLE RRDLSHKEKL YLRELNVITE TQCTLGLTAL RSDEVIDLMI 150
    KEYPAKHAEY SVILQEKERQ RITDHYKEYS QMQQQSTQKV EASKVPEYIK 200
    KAAKKAAEFN SNLNRERMEE RRAYFDLQTH VIQVPQGKYK VLPTDRTKVS 250
    SYPVALIPGQ FQEYYKRYSP DELRYLPLNT ALYEPPLDPE LPALDSDGDS 300
    DDGEDGGGDE KRKNKGTSDS SSGNVSEGDS PPDSQEDTFH GRQKSKDKMA 350
    TPRKDGSKRS VLSKSAPGYK PKVIPNALCG ICLKGKESNK KGKAESLIHC 400
    SQCDNSGHPS CLDMTMELVS MIKTYPWQCM ECKTCIICGQ PHHEEEMMFC 450
    DVCDRGYHTF CVGLGAIPSG RWICDCCQRA PPTPRKVGRR GKNSKEG 497
    Length:497
    Mass (Da):55,840
    Last modified:July 27, 2011 - v4
    Checksum:iA1F27CB9F616A271
    GO
    Isoform 2 (identifier: Q9D8M7-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         108-109: Missing.

    Show »
    Length:495
    Mass (Da):55,611
    Checksum:iC4D10352EBBE5FD6
    GO

    Sequence cautioni

    The sequence AAH02206.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
    The sequence BAB25323.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti2 – 21T → A in BAB25323. (PubMed:16141072)Curated
    Sequence conflicti10 – 101P → L in BAB25323. (PubMed:16141072)Curated
    Sequence conflicti115 – 1151S → Y in BAB25323. (PubMed:16141072)Curated
    Sequence conflicti349 – 3491M → V in BAB25323. (PubMed:16141072)Curated
    Sequence conflicti416 – 4161M → V in BAB25323. (PubMed:16141072)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei108 – 1092Missing in isoform 2. 1 PublicationVSP_013441

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK007873 mRNA. Translation: BAB25323.1. Different initiation.
    AC154411 Genomic DNA. No translation available.
    AC182749 Genomic DNA. No translation available.
    BC002206 mRNA. Translation: AAH02206.1. Different initiation.
    CCDSiCCDS28407.2. [Q9D8M7-1]
    RefSeqiNP_077212.3. NM_024250.4.
    UniGeneiMm.440085.

    Genome annotation databases

    GeneIDi72057.
    KEGGimmu:72057.
    UCSCiuc008anj.2. mouse. [Q9D8M7-2]
    uc029tag.1. mouse. [Q9D8M7-1]

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AK007873 mRNA. Translation: BAB25323.1 . Different initiation.
    AC154411 Genomic DNA. No translation available.
    AC182749 Genomic DNA. No translation available.
    BC002206 mRNA. Translation: AAH02206.1 . Different initiation.
    CCDSi CCDS28407.2. [Q9D8M7-1 ]
    RefSeqi NP_077212.3. NM_024250.4.
    UniGenei Mm.440085.

    3D structure databases

    ProteinModelPortali Q9D8M7.
    SMRi Q9D8M7. Positions 375-478.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 215123. 2 interactions.
    IntActi Q9D8M7. 1 interaction.
    MINTi MINT-4127642.

    PTM databases

    PhosphoSitei Q9D8M7.

    Proteomic databases

    MaxQBi Q9D8M7.
    PRIDEi Q9D8M7.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 72057.
    KEGGi mmu:72057.
    UCSCi uc008anj.2. mouse. [Q9D8M7-2 ]
    uc029tag.1. mouse. [Q9D8M7-1 ]

    Organism-specific databases

    CTDi 55274.
    MGIi MGI:1919307. Phf10.

    Phylogenomic databases

    eggNOGi NOG279558.
    HOGENOMi HOG000286026.
    HOVERGENi HBG053581.
    InParanoidi Q9D8M7.

    Miscellaneous databases

    NextBioi 335336.
    PROi Q9D8M7.
    SOURCEi Search...

    Gene expression databases

    Bgeei Q9D8M7.
    CleanExi MM_PHF10.
    Genevestigatori Q9D8M7.

    Family and domain databases

    Gene3Di 3.30.40.10. 2 hits.
    InterProi IPR011011. Znf_FYVE_PHD.
    IPR001965. Znf_PHD.
    IPR019787. Znf_PHD-finger.
    IPR013083. Znf_RING/FYVE/PHD.
    [Graphical view ]
    Pfami PF00628. PHD. 1 hit.
    [Graphical view ]
    SMARTi SM00249. PHD. 2 hits.
    [Graphical view ]
    SUPFAMi SSF57903. SSF57903. 2 hits.
    PROSITEi PS01359. ZF_PHD_1. 1 hit.
    PS50016. ZF_PHD_2. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The transcriptional landscape of the mammalian genome."
      Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
      , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
      Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Strain: C57BL/6J.
      Tissue: Pancreas.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: C57BL/6J.
    3. "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] OF 66-497 (ISOFORM 2).
      Strain: FVB/N.
      Tissue: Mammary tumor.
    4. "An essential switch in subunit composition of a chromatin remodeling complex during neural development."
      Lessard J., Wu J.I., Ranish J.A., Wan M., Winslow M.M., Staahl B.T., Wu H., Aebersold R., Graef I.A., Crabtree G.R.
      Neuron 55:201-215(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, FUNCTION OF THE NBAF AND NPBAF COMPLEXES, IDENTIFICATION IN THE NPBAF COMPLEX, INTERACTION WITH ACTL6A; SMARCA2; SMARCA4 AND PBRM1, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY, IDENTIFICATION BY MASS SPECTROMETRY.
    5. "The phagosomal proteome in interferon-gamma-activated macrophages."
      Trost M., English L., Lemieux S., Courcelles M., Desjardins M., Thibault P.
      Immunity 30:143-154(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-326, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiPHF10_MOUSE
    AccessioniPrimary (citable) accession number: Q9D8M7
    Secondary accession number(s): E9QLI2, Q99LV5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 26, 2005
    Last sequence update: July 27, 2011
    Last modified: October 1, 2014
    This is version 104 of the entry and version 4 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Caution

    It is uncertain whether Met-1 or Met-88 is the initiator.Curated

    Keywords - Technical termi

    Complete proteome, 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

    External Data

    Dasty 3