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Q6DFA8

- GLD2B_XENLA

UniProt

Q6DFA8 - GLD2B_XENLA

Protein

Poly(A) RNA polymerase GLD2-B

Gene

papd4-b

Organism
Xenopus laevis (African clawed frog)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 47 (01 Oct 2014)
      Sequence version 1 (16 Aug 2004)
      Previous versions | rss
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    Functioni

    Cytoplasmic poly(A) RNA polymerase that adds successive AMP monomers to the 3'-end of specific RNAs, forming a poly(A) tail. In contrast to the canonical nuclear poly(A) RNA polymerase, it only adds poly(A) to selected cytoplasmic mRNAs during oocyte maturation. Plays a central role during oocyte maturation by mediating polyadenylation of dormant mRNAs, which contain 5'AAUAAA-3' sequence in their 3'-UTR. In immature oocytes, polyadenylation of poly(A) tails is counteracted by the ribonuclease parn. During maturation parn is excluded from the ribonucleoprotein complex, allowing poly(A) elongation and activation of mRNAs. May not play a role in replication-dependent histone mRNA degradation By similarity.By similarity

    Catalytic activityi

    ATP + RNA(n) = diphosphate + RNA(n+1).1 Publication

    Cofactori

    Magnesium or manganese.By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi240 – 2401Magnesium or manganese; catalyticBy similarity
    Metal bindingi242 – 2421Magnesium or manganese; catalyticBy similarity

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-KW
    2. metal ion binding Source: UniProtKB-KW
    3. polynucleotide adenylyltransferase activity Source: UniProtKB-EC

    GO - Biological processi

    1. mRNA processing Source: UniProtKB-KW
    2. multicellular organismal development Source: UniProtKB-KW
    3. oogenesis Source: UniProtKB-KW

    Keywords - Molecular functioni

    Developmental protein, Transferase

    Keywords - Biological processi

    Differentiation, mRNA processing, Oogenesis

    Keywords - Ligandi

    ATP-binding, Magnesium, Manganese, Metal-binding, Nucleotide-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Poly(A) RNA polymerase GLD2-B (EC:2.7.7.19)
    Short name:
    xGLD-2
    Alternative name(s):
    PAP-associated domain-containing protein 4-B
    Gene namesi
    Name:papd4-b
    Synonyms:gld2-b
    OrganismiXenopus laevis (African clawed frog)
    Taxonomic identifieri8355 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusXenopus

    Organism-specific databases

    XenbaseiXB-GENE-6256236. papd4.

    Subcellular locationi

    Cytoplasm 2 Publications

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    Pathology & Biotechi

    Mutagenesis

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Mutagenesisi242 – 2421D → A: Loss of activity. 1 Publication

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 509509Poly(A) RNA polymerase GLD2-BPRO_0000341554Add
    BLAST

    Proteomic databases

    PRIDEiQ6DFA8.

    Expressioni

    Developmental stagei

    Present in oocytes.1 Publication

    Inductioni

    Autoregulated; mediates its own polyadenylation and translational activation during frog oocyte maturation.1 Publication

    Interactioni

    Subunit structurei

    Component of a complex at least composed of cpeb1, cpsf1, papd4/gld2, pabpc1/ePAB, parn and sympk. Following oocyte maturation, parn is expelled from the complex. Interacts with rbfox2. Interacts with sympk By similarity.By similarity

    Protein-protein interaction databases

    IntActiQ6DFA8. 1 interaction.
    MINTiMINT-7983711.

    Structurei

    3D structure databases

    ProteinModelPortaliQ6DFA8.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini409 – 46254PAP-associatedAdd
    BLAST

    Sequence similaritiesi

    Contains 1 PAP-associated domain.Curated

    Phylogenomic databases

    HOVERGENiHBG097533.
    KOiK14079.

    Family and domain databases

    InterProiIPR002934. Nucleotidyltransferase.
    IPR002058. PAP_assoc.
    [Graphical view]
    PfamiPF01909. NTP_transf_2. 1 hit.
    PF03828. PAP_assoc. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: Q6DFA8-1) [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

    MYPNSPSLGR IPLPLPCARQ QQTSAYLSKV PVSVAPDLLS PEQFFQASLN    50
    IHKNANLPRL LMNGNVLTVP PLSSPPWSYL NHSPLISPGS PPSSFQNRKR 100
    RSDEGNSPYD VKRQRFQSPQ EQTVNHQAVP LRGDIRCSYP GSPAFPLLQS 150
    PSPPVLKGHS SNSGDCWLYD HIDTTLPVAK DKLSKQILDL FQALQQQVCD 200
    LKKKDICRAE LQREIQQIFP QSRLYLVGSS LNGFGIRSSD ADLCLVLKEE 250
    PMNQNTEARH ILSLLHKHFY TRLSYIERPQ FIRAKVPIVK FRDKVSGAEF 300
    DLNVNNVVGI RNTFLLRTYA YLDKRVRPLV LVIKKWANHH GINDASRGTL 350
    SSYTIVLMVL HYLQTLPEPI LPSLQKKYPE CFDRTMQLHL VHQAPRNIPQ 400
    FLSKNETPLG DLLLGFLKYF AVEFDWSKDI ISLREAKALP RTDDYEWRNK 450
    YICVEEPFDG SNTARAVYEK QKFDLIRAEF LKAWVALRDN RDLYSLLPVK 500
    GIMKKMHSL 509
    Length:509
    Mass (Da):58,235
    Last modified:August 16, 2004 - v1
    Checksum:i8FB3569E258252D7
    GO
    Isoform 2 (identifier: Q6DFA8-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         56-98: Missing.

    Show »
    Length:466
    Mass (Da):53,570
    Checksum:i51E6DD2192BAEAB8
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti28 – 281S → T in AAT98005. (PubMed:15550246)Curated
    Sequence conflicti133 – 1331G → S in AAT98005. (PubMed:15550246)Curated
    Sequence conflicti376 – 3761K → R in AAT98005. (PubMed:15550246)Curated
    Sequence conflicti430 – 4301I → V in AAT98005. (PubMed:15550246)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei56 – 9843Missing in isoform 2. 1 PublicationVSP_034326Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY655140 mRNA. Translation: AAT98005.1.
    AM419010 mRNA. Translation: CAL91353.1.
    BC076832 mRNA. Translation: AAH76832.1.
    RefSeqiNP_001086580.1. NM_001093111.1. [Q6DFA8-1]
    NP_001087078.1. NM_001093609.1.
    UniGeneiXl.63197.
    Xl.75862.

    Genome annotation databases

    GeneIDi446415.
    446914.
    KEGGixla:446415.
    xla:446914.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AY655140 mRNA. Translation: AAT98005.1 .
    AM419010 mRNA. Translation: CAL91353.1 .
    BC076832 mRNA. Translation: AAH76832.1 .
    RefSeqi NP_001086580.1. NM_001093111.1. [Q6DFA8-1 ]
    NP_001087078.1. NM_001093609.1.
    UniGenei Xl.63197.
    Xl.75862.

    3D structure databases

    ProteinModelPortali Q6DFA8.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi Q6DFA8. 1 interaction.
    MINTi MINT-7983711.

    Proteomic databases

    PRIDEi Q6DFA8.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 446415.
    446914.
    KEGGi xla:446415.
    xla:446914.

    Organism-specific databases

    CTDi 446415.
    446914.
    Xenbasei XB-GENE-6256236. papd4.

    Phylogenomic databases

    HOVERGENi HBG097533.
    KOi K14079.

    Family and domain databases

    InterProi IPR002934. Nucleotidyltransferase.
    IPR002058. PAP_assoc.
    [Graphical view ]
    Pfami PF01909. NTP_transf_2. 1 hit.
    PF03828. PAP_assoc. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Symplekin and xGLD-2 are required for CPEB-mediated cytoplasmic polyadenylation."
      Barnard D.C., Ryan K., Manley J.L., Richter J.D.
      Cell 119:641-651(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH CPEB1; CPSF1 AND SYMPK, MUTAGENESIS OF ASP-242.
      Tissue: Oocyte.
    2. "Xenopus Rbm9 is a novel interactor of XGld2 in the cytoplasmic polyadenylation complex."
      Papin C., Rouget C., Mandart E.
      FEBS J. 275:490-503(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), INTERACTION WITH RBFOX2.
      Tissue: Oocyte.
    3. NIH - Xenopus Gene Collection (XGC) project
      Submitted (JUL-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Oocyte.
    4. "Vertebrate GLD2 poly(A) polymerases in the germline and the brain."
      Rouhana L., Wang L., Buter N., Kwak J.E., Schiltz C.A., Gonzalez T., Kelley A.E., Landry C.F., Wickens M.
      RNA 11:1117-1130(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, ENZYME ACTIVITY, SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE.
    5. "Opposing polymerase-deadenylase activities regulate cytoplasmic polyadenylation."
      Kim J.H., Richter J.D.
      Mol. Cell 24:173-183(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, INTERACTION WITH PARN.
    6. "RINGO/cdk1 and CPEB mediate poly(A) tail stabilization and translational regulation by ePAB."
      Kim J.H., Richter J.D.
      Genes Dev. 21:2571-2579(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: INTERACTION WITH PABPC1.
    7. "Autoregulation of GLD-2 cytoplasmic poly(A) polymerase."
      Rouhana L., Wickens M.
      RNA 13:188-199(2007) [PubMed] [Europe PMC] [Abstract]
      Cited for: INDUCTION.

    Entry informationi

    Entry nameiGLD2B_XENLA
    AccessioniPrimary (citable) accession number: Q6DFA8
    Secondary accession number(s): A4F5G9, Q68PF4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 10, 2008
    Last sequence update: August 16, 2004
    Last modified: October 1, 2014
    This is version 47 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3