Q8WUB8 (PHF10_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 99.
History...
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: PHD finger protein 10 Alternative name(s): BRG1-associated factor 45a Short name=BAF45a XAP135 | ||||
| Gene names |
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| Organism | Homo sapiens (Human) [Reference proteome] | ||||
| Taxonomic identifier | 9606 [NCBI] | ||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 498 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is further processed into a mature form. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | 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 By similarity. |
| Subunit structure | 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 By similarity. |
| Subcellular location | Nucleus By similarity. |
| Sequence similarities | Belongs to the SAYP family. Contains 2 PHD-type zinc fingers. |
| Caution | It is uncertain whether Met-1 or Met-89 is the initiator. |
| Sequence caution | The sequence AAH20954.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence AAI10324.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence AAK27451.1 differs from that shown. Reason: Erroneous gene model prediction. The sequence BAA91934.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence BAD96332.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence CAG33554.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence CAI12316.1 differs from that shown. Reason: Erroneous gene model prediction. |
Ontologies
| Keywords | |
|---|---|
| Biological process | Neurogenesis Transcription Transcription regulation |
| Cellular component | Nucleus |
| Coding sequence diversity | Alternative splicing |
| Domain | Repeat Zinc-finger |
| Ligand | Metal-binding Zinc |
| PTM | Acetylation Phosphoprotein |
| Technical term | Complete proteome Reference proteome |
| Gene Ontology (GO) | |
| Biological_process | nervous system development Inferred from electronic annotation. Source: UniProtKB-KW regulation of transcription, DNA-dependentInferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependentInferred from electronic annotation. Source: UniProtKB-KW |
| Cellular_component | npBAF complex Inferred from sequence or structural similarity. Source: UniProtKB |
| Molecular_function | zinc ion binding Inferred from electronic annotation. Source: InterPro |
| Complete GO annotation... | |
Alternative products
| This entry describes 3 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 (identifier: Q8WUB8-1) 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: Q8WUB8-2) Also known as: B; The sequence of this isoform differs from the canonical sequence as follows: 109-110: Missing. | ||||||
| Isoform 3 (identifier: Q8WUB8-3) The sequence of this isoform differs from the canonical sequence as follows: 1-47: Missing. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Initiator methionine | 1 | 1 | Removed Ref.11 | ||||||
| Chain | 2 – 498 | 497 | PHD finger protein 10 | PRO_0000059297 | |||||
Regions | |||||||||
| Zinc finger | 379 – 436 | 58 | PHD-type 1; degenerate | ||||||
| Zinc finger | 438 – 481 | 44 | PHD-type 2; degenerate | ||||||
| Region | 89 – 295 | 207 | SAY | ||||||
| Region | 89 – 185 | 97 | Essential to induce neural progenitor proliferation By similarity | ||||||
| Region | 292 – 334 | 43 | Essential to induce neural progenitor proliferation By similarity | ||||||
Amino acid modifications | |||||||||
| Modified residue | 2 | 1 | N-acetylalanine Ref.11 | ||||||
| Modified residue | 12 | 1 | Phosphoserine Ref.11 | ||||||
| Modified residue | 36 | 1 | Phosphoserine Ref.12 | ||||||
| Modified residue | 50 | 1 | Phosphoserine Ref.12 | ||||||
| Modified residue | 270 | 1 | Phosphoserine Ref.9 Ref.11 | ||||||
| Modified residue | 297 | 1 | Phosphoserine Ref.9 Ref.10 Ref.11 Ref.12 | ||||||
| Modified residue | 301 | 1 | Phosphoserine Ref.9 Ref.10 Ref.11 Ref.12 | ||||||
| Modified residue | 327 | 1 | Phosphoserine Ref.10 Ref.12 | ||||||
Natural variations | |||||||||
| Alternative sequence | 1 – 47 | 47 | Missing in isoform 3. | VSP_039090 | |||||
| Alternative sequence | 109 – 110 | 2 | Missing in isoform 2. | VSP_013440 | |||||
Experimental info | |||||||||
| Sequence conflict | 126 | 1 | L → P in AAK27451. Ref.4 | ||||||
| Sequence conflict | 246 | 1 | E → G in AAK27451. Ref.4 | ||||||
| Sequence conflict | 275 | 1 | R → W in AAK27451. Ref.4 | ||||||
| Sequence conflict | 286 – 287 | 2 | PP → AT in AAK27451. Ref.4 | ||||||
| Sequence conflict | 325 | 1 | N → K in AAK27451. Ref.4 | ||||||
| Sequence conflict | 332 | 1 | P → S in AAK27451. Ref.4 | ||||||
| Sequence conflict | 357 | 1 | G → A in AAK27451. Ref.4 | ||||||
| Sequence conflict | 365 | 1 | K → N in AAK27451. Ref.4 | ||||||
| Sequence conflict | 422 | 1 | M → T in BAD96332. Ref.7 | ||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "PHF10 is required for cell proliferation in normal and SV40-immortalized human fibroblast cells." Banga S.S., Peng L., Dasgupta T., Palejwala V., Ozer H.L. Cytogenet. Genome Res. 126:227-242(2009) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 3). |
| [2] | "The DNA sequence and analysis of human chromosome 6." Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D. Beck S.Nature 425:805-811(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [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] (ISOFORMS 1 AND 2). Tissue: Colon and Skin. |
| [4] | "Physical and genetic characterization reveals a pseudogene, an evolutionary junction, and unstable loci in distal Xq28." Aradhya S., Woffendin H., Bonnen P., Heiss N.S., Yamagata T., Esposito T., Bardaro T., Poustka A., D'Urso M., Kenwrick S., Nelson D.L. Genomics 79:31-40(2002) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 73-498 (ISOFORM 1), ALTERNATIVE SPLICING. |
| [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. Sugano S.Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 87-498 (ISOFORM 1). Tissue: Placenta. |
| [6] | "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] OF 89-498 (ISOFORM 1). |
| [7] | Suzuki Y., Sugano S., Totoki Y., Toyoda A., Takeda T., Sakaki Y., Tanaka A., Yokoyama S. Submitted (APR-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 89-498 (ISOFORM 1). Tissue: Artery smooth muscle. |
| [8] | "Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis." Cantin G.T., Yi W., Lu B., Park S.K., Xu T., Lee J.-D., Yates J.R. III J. Proteome Res. 7:1346-1351(2008) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS]. Tissue: Cervix carcinoma. |
| [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-270; SER-297 AND SER-301, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [10] | "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-297; SER-301 AND SER-327, MASS SPECTROMETRY. Tissue: Leukemic T-cell. |
| [11] | "Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis." Olsen J.V., Vermeulen M., Santamaria A., Kumar C., Miller M.L., Jensen L.J., Gnad F., Cox J., Jensen T.S., Nigg E.A., Brunak S., Mann M. Sci. Signal. 3:RA3-RA3(2010) [PubMed] [Europe PMC] [Abstract] Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2, PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-12; SER-270; SER-297 AND SER-301, MASS SPECTROMETRY, CLEAVAGE OF INITIATOR METHIONINE. Tissue: Cervix carcinoma. |
| [12] | "System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation." Rigbolt K.T., Prokhorova T.A., Akimov V., Henningsen J., Johansen P.T., Kratchmarova I., Kassem M., Mann M., Olsen J.V., Blagoev B. Sci. Signal. 4:RS3-RS3(2011) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-36; SER-50; SER-297; SER-301 AND SER-327, MASS SPECTROMETRY. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | AL513547 Genomic DNA. Translation: CAI12316.1. Sequence problems. BC020954 mRNA. Translation: AAH20954.1. Different initiation. BC110323 mRNA. Translation: AAI10324.1. Different initiation. AF338735 Genomic DNA. Translation: AAK27451.1. Sequence problems. AK001837 mRNA. Translation: BAA91934.1. Different initiation. CR457273 mRNA. Translation: CAG33554.1. Different initiation. AK222612 mRNA. Translation: BAD96332.1. Different initiation. |
| IPI | IPI00940864. IPI00941847. IPI00964464. |
| RefSeq | NP_060758.2. NM_018288.3. NP_579866.2. NM_133325.2. |
| UniGene | Hs.435933. |
3D structure databases | |
| ProteinModelPortal | Q8WUB8. |
| SMR | Q8WUB8. Positions 376-479. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | Q8WUB8. 10 interactions. |
| MINT | MINT-1373208. |
| STRING | 9606.ENSP00000341805. |
PTM databases | |
| PhosphoSite | Q8WUB8. |
Polymorphism databases | |
| DMDM | 296439276. |
Proteomic databases | |
| PaxDb | Q8WUB8. |
| PRIDE | Q8WUB8. |
Protocols and materials databases | |
| DNASU | 55274. |
| StructuralBiologyKnowledgebase | Search... |
Genome annotation databases | |
| Ensembl | ENST00000339209; ENSP00000341805; ENSG00000130024. ENST00000366780; ENSP00000355743; ENSG00000130024. |
| GeneID | 55274. |
| KEGG | hsa:55274. |
| UCSC | uc011egy.2. human. uc011egz.2. human. |
Organism-specific databases | |
| CTD | 55274. |
| GeneCards | GC06M170104. |
| HGNC | HGNC:18250. PHF10. |
| MIM | 613069. gene. |
| neXtProt | NX_Q8WUB8. |
| PharmGKB | PA134972675. |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | NOG279558. |
| HOGENOM | HOG000286026. |
| HOVERGEN | HBG053581. |
| InParanoid | Q8WUB8. |
| OMA | CETSSQD. |
| OrthoDB | EOG4BCDNG. |
Gene expression databases | |
| Bgee | Q8WUB8. |
| CleanEx | HS_PHF10. |
| Genevestigator | Q8WUB8. |
| GermOnline | ENSG00000130024. Homo sapiens. |
Family and domain databases | |
| Gene3D | 3.30.40.10. 2 hits. |
| InterPro | IPR011011. Znf_FYVE_PHD. IPR001965. Znf_PHD. IPR019787. Znf_PHD-finger. IPR013083. Znf_RING/FYVE/PHD. [Graphical view] |
| Pfam | PF00628. PHD. 1 hit. [Graphical view] |
| SMART | SM00249. PHD. 2 hits. [Graphical view] |
| SUPFAM | SSF57903. FYVE_PHD_ZnF. 2 hits. |
| PROSITE | PS01359. ZF_PHD_1. 1 hit. PS50016. ZF_PHD_2. 2 hits. [Graphical view] |
| ProtoNet | Search... |
Other | |
| GenomeRNAi | 55274. |
| NextBio | 59399. |
| SOURCE | Search... |
Entry information
| Entry name | PHF10_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q8WUB8 Secondary accession number(s): Q2YDA3 Q9NV26 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
| Disclaimer | Any 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
| Human chromosome 6 Human chromosome 6: entries, gene names and cross-references to MIM |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| SIMILARITY comments Index of protein domains and families |

Clusters with
