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Protein

PHD finger-like domain-containing protein 5A

Gene

Phf5a

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Acts as a transcriptional regulator by binding to the GJA1/Cx43 promoter and enhancing its up-regulation by ESR1/ER-alpha. Also involved in pre-mRNA splicing (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Activator

Keywords - Biological processi

mRNA processing, mRNA splicing, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-MMU-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
PHD finger-like domain-containing protein 5A
Short name:
PHD finger-like domain protein 5A
Alternative name(s):
Splicing factor 3B-associated 14 kDa protein
Short name:
SF3b14b
Gene namesi
Name:Phf5a
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 15

Organism-specific databases

MGIiMGI:2156864. Phf5a.

Subcellular locationi

GO - Cellular componenti

  • nuclear matrix Source: MGI
  • nuclear speck Source: UniProtKB
  • nucleoplasm Source: MGI
  • U12-type spliceosomal complex Source: MGI
  • U2 snRNP Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemovedCombined sources
Chaini2 – 110109PHD finger-like domain-containing protein 5APRO_0000218717Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanineCombined sources
Modified residuei3 – 31N6-acetyllysineCombined sources

Keywords - PTMi

Acetylation

Proteomic databases

EPDiP83870.
MaxQBiP83870.
PaxDbiP83870.
PRIDEiP83870.

PTM databases

iPTMnetiP83870.
PhosphoSiteiP83870.

Expressioni

Tissue specificityi

Expressed in primary spermatocytes (at protein level). Ubiquitously expressed in pre- and postnatal tissues.2 Publications

Gene expression databases

BgeeiP83870.
CleanExiMM_PHF5A.
GenevisibleiP83870. MM.

Interactioni

Subunit structurei

Component of splicing factor SF3B complex which is composed of at least eight subunits; SF3B1, SF3B2, SF3B3, SF3B4, SF3B5, SF3B6, PHF5A/SF3B14B, and DDX42/SF3B125. SF3B associates with the splicing factor SF3A and a 12S RNA unit to form the U2 small nuclear ribonucleoproteins complex (U2 snRNP). Component of the U11/U12 snRNPs that are part of the U12-type spliceosome (By similarity). Interacts (via N-terminus) with U2AF1 and SRSF5; acts to bridge the two. Interacts (via C-terminus) with EP400 and DDX1; acts to bridge the two.By similarity1 Publication

Protein-protein interaction databases

BioGridi212875. 1 interaction.
IntActiP83870. 2 interactions.
MINTiMINT-4107454.
STRINGi10090.ENSMUSP00000023117.

Structurei

3D structure databases

ProteinModelPortaliP83870.
SMRiP83870. Positions 2-104.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the PHF5 family.Curated

Phylogenomic databases

eggNOGiKOG1705. Eukaryota.
ENOG4111JIM. LUCA.
GeneTreeiENSGT00390000018518.
HOGENOMiHOG000168285.
HOVERGENiHBG053587.
InParanoidiP83870.
KOiK12834.
OMAiCKECTVQ.
OrthoDBiEOG7C2R3G.
PhylomeDBiP83870.
TreeFamiTF105627.

Family and domain databases

InterProiIPR005345. PHF5.
[Graphical view]
PANTHERiPTHR13120. PTHR13120. 1 hit.
PfamiPF03660. PHF5. 1 hit.
[Graphical view]
PIRSFiPIRSF016468. PHF5. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P83870-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAKHHPDLIF CRKQAGVAIG RLCEKCDGKC VICDSYVRPC TLVRICDECN
60 70 80 90 100
YGSYQGRCVI CGGPGVSDAY YCKECTIQEK DRDGCPKIVN LGSSKTDLFY
110
ERKKYGFKKR
Length:110
Mass (Da):12,405
Last modified:April 26, 2004 - v1
Checksum:i90F7469DE7292BF7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF479286 Genomic DNA. Translation: AAM49735.1.
AF479288 mRNA. Translation: AAM49736.1.
AK003520 mRNA. Translation: BAB22833.1.
AK143590 mRNA. Translation: BAE25453.1.
AK163247 mRNA. Translation: BAE37255.1.
AK167932 mRNA. Translation: BAE39936.1.
AK167955 mRNA. Translation: BAE39955.1.
BC025161 mRNA. Translation: AAH25161.1.
CCDSiCCDS27674.1.
PIRiJC7851.
RefSeqiNP_081013.1. NM_026737.3.
UniGeneiMm.271715.

Genome annotation databases

EnsembliENSMUST00000023117; ENSMUSP00000023117; ENSMUSG00000061360.
GeneIDi68479.
KEGGimmu:68479.
UCSCiuc007wxo.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF479286 Genomic DNA. Translation: AAM49735.1.
AF479288 mRNA. Translation: AAM49736.1.
AK003520 mRNA. Translation: BAB22833.1.
AK143590 mRNA. Translation: BAE25453.1.
AK163247 mRNA. Translation: BAE37255.1.
AK167932 mRNA. Translation: BAE39936.1.
AK167955 mRNA. Translation: BAE39955.1.
BC025161 mRNA. Translation: AAH25161.1.
CCDSiCCDS27674.1.
PIRiJC7851.
RefSeqiNP_081013.1. NM_026737.3.
UniGeneiMm.271715.

3D structure databases

ProteinModelPortaliP83870.
SMRiP83870. Positions 2-104.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi212875. 1 interaction.
IntActiP83870. 2 interactions.
MINTiMINT-4107454.
STRINGi10090.ENSMUSP00000023117.

PTM databases

iPTMnetiP83870.
PhosphoSiteiP83870.

Proteomic databases

EPDiP83870.
MaxQBiP83870.
PaxDbiP83870.
PRIDEiP83870.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000023117; ENSMUSP00000023117; ENSMUSG00000061360.
GeneIDi68479.
KEGGimmu:68479.
UCSCiuc007wxo.1. mouse.

Organism-specific databases

CTDi84844.
MGIiMGI:2156864. Phf5a.

Phylogenomic databases

eggNOGiKOG1705. Eukaryota.
ENOG4111JIM. LUCA.
GeneTreeiENSGT00390000018518.
HOGENOMiHOG000168285.
HOVERGENiHBG053587.
InParanoidiP83870.
KOiK12834.
OMAiCKECTVQ.
OrthoDBiEOG7C2R3G.
PhylomeDBiP83870.
TreeFamiTF105627.

Enzyme and pathway databases

ReactomeiR-MMU-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

PROiP83870.
SOURCEiSearch...

Gene expression databases

BgeeiP83870.
CleanExiMM_PHF5A.
GenevisibleiP83870. MM.

Family and domain databases

InterProiIPR005345. PHF5.
[Graphical view]
PANTHERiPTHR13120. PTHR13120. 1 hit.
PfamiPF03660. PHF5. 1 hit.
[Graphical view]
PIRSFiPIRSF016468. PHF5. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification and characterization of a novel murine multigene family containing a PHD-finger-like motif."
    Trappe R., Ahmed M., Glaeser B., Vogel C., Tascou S., Burfeind P., Engel W.
    Biochem. Biophys. Res. Commun. 293:816-826(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA], SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
  2. "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].
    Strain: BALB/cJ, C57BL/6J and DBA/2.
    Tissue: Egg and Spleen.
  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].
    Strain: FVB/N.
    Tissue: Kidney.
  4. "PHF5A represents a bridge protein between splicing proteins and ATP-dependent helicases and is differentially expressed during mouse spermatogenesis."
    Rzymski T., Grzmil P., Meinhardt A., Wolf S., Burfeind P.
    Cytogenet. Genome Res. 121:232-244(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH DDX1; EP400; SRSF5 AND U2AF1, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
  5. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Brown adipose tissue, Kidney, Liver, Pancreas, Spleen and Testis.
  6. "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways."
    Park J., Chen Y., Tishkoff D.X., Peng C., Tan M., Dai L., Xie Z., Zhang Y., Zwaans B.M., Skinner M.E., Lombard D.B., Zhao Y.
    Mol. Cell 50:919-930(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2 AND LYS-3, CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS], IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Embryonic fibroblast.

Entry informationi

Entry nameiPHF5A_MOUSE
AccessioniPrimary (citable) accession number: P83870
Secondary accession number(s): Q3TQX7, Q9UH06
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 26, 2004
Last sequence update: April 26, 2004
Last modified: June 8, 2016
This is version 106 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.