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Protein

Poly(A) RNA polymerase GLD2

Gene

papd4

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

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).

Cofactori

Mg2+By similarity, Mn2+By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi259 – 2591Magnesium or manganese; catalyticBy similarity
Metal bindingi261 – 2611Magnesium or manganese; catalyticBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

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 (EC:2.7.7.19)
Alternative name(s):
PAP-associated domain-containing protein 4
Gene namesi
Name:papd4
Synonyms:gld2
OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Taxonomic identifieri8364 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
ProteomesiUP000008143 Componenti: Unassembled WGS sequence

Organism-specific databases

XenbaseiXB-GENE-1217408. papd4.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 528528Poly(A) RNA polymerase GLD2PRO_0000341555Add
BLAST

Expressioni

Gene expression databases

BgeeiQ0VFA3.
ExpressionAtlasiQ0VFA3. baseline.

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 rbm9 and sympk (By similarity).By similarity

Protein-protein interaction databases

STRINGi8364.ENSXETP00000062194.

Structurei

3D structure databases

ProteinModelPortaliQ0VFA3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini428 – 48154PAP-associatedAdd
BLAST

Sequence similaritiesi

Contains 1 PAP-associated domain.Curated

Phylogenomic databases

eggNOGiCOG5260.
GeneTreeiENSGT00550000074490.
HOGENOMiHOG000088606.
HOVERGENiHBG097533.
InParanoidiQ0VFA3.
KOiK14079.
OrthoDBiEOG7DRJ2S.
TreeFamiTF315661.

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. AlignAdd to basket

Isoform 1 (identifier: Q0VFA3-1) [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

        10         20         30         40         50
MYPNSPSQGR IPLPLPCEQQ QPPLEQSQEQ PLQPQPLQPQ QASGYLSKLP
60 70 80 90 100
VSVAPELLSP EQFIQASINL HNNVNFARML MNANLLAVPP VSPPPWSYRD
110 120 130 140 150
QSPLISPASP SSSFQNRKRR SDEGNIAYDV KRQKFQSPQE QTVNHQAVPL
160 170 180 190 200
RGDLGCSYPG SPAFPLLQSP SPPVLKGHVP NSGECWLYDH VDTTLPVAKD
210 220 230 240 250
KLSKQILELF QALQQQVCDL KKKDICRAEL QREIQQIFPQ SRLYLVGSSL
260 270 280 290 300
NGFGTRSSDA DLCLVLKDEP MNQHTEARHI LSLLHKHFYT RLSYIERPQF
310 320 330 340 350
IKAKVPIVKF RDKVSGAEFD LNVNNVVGIR NTFLLRTYAY IENRVRPLVL
360 370 380 390 400
VIKMWANYHG LNDASRGTLS SYTLVLMALH YLQTLPEPII PSLQKKYPEC
410 420 430 440 450
FDSTMQLHLV HHAPRNIPKY LSKNETPLGD LLLGFLKYFA IEFDWSKDII
460 470 480 490 500
SVREAKALPR SDDYEWRNKF ICVEEPYDRT NTARAVYERQ KFDMIRAEFL
510 520
RAWVALRDNR DLYSLLPWKG IMKKMNSL
Length:528
Mass (Da):60,540
Last modified:September 5, 2006 - v1
Checksum:iC7324D94F2546469
GO
Isoform 2 (identifier: Q0VFA3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     35-39: Missing.

Note: No experimental confirmation available.
Show »
Length:523
Mass (Da):59,976
Checksum:i51A27977D91F6FE9
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei35 – 395Missing in isoform 2. 1 PublicationVSP_034327

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC118909 mRNA. Translation: AAI18910.1.
BC136215 mRNA. Translation: AAI36216.1.
RefSeqiNP_001072915.1. NM_001079447.1. [Q0VFA3-1]
UniGeneiStr.52621.

Genome annotation databases

EnsembliENSXETT00000066119; ENSXETP00000062194; ENSXETG00000000518. [Q0VFA3-1]
GeneIDi780377.
KEGGixtr:780377.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC118909 mRNA. Translation: AAI18910.1.
BC136215 mRNA. Translation: AAI36216.1.
RefSeqiNP_001072915.1. NM_001079447.1. [Q0VFA3-1]
UniGeneiStr.52621.

3D structure databases

ProteinModelPortaliQ0VFA3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi8364.ENSXETP00000062194.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSXETT00000066119; ENSXETP00000062194; ENSXETG00000000518. [Q0VFA3-1]
GeneIDi780377.
KEGGixtr:780377.

Organism-specific databases

CTDi167153.
XenbaseiXB-GENE-1217408. papd4.

Phylogenomic databases

eggNOGiCOG5260.
GeneTreeiENSGT00550000074490.
HOGENOMiHOG000088606.
HOVERGENiHBG097533.
InParanoidiQ0VFA3.
KOiK14079.
OrthoDBiEOG7DRJ2S.
TreeFamiTF315661.

Gene expression databases

BgeeiQ0VFA3.
ExpressionAtlasiQ0VFA3. baseline.

Family and domain databases

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

Publicationsi

  1. NIH - Xenopus Gene Collection (XGC) project
    Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2).
    Tissue: Brain.

Entry informationi

Entry nameiGLD2_XENTR
AccessioniPrimary (citable) accession number: Q0VFA3
Secondary accession number(s): A4IIZ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 10, 2008
Last sequence update: September 5, 2006
Last modified: June 24, 2015
This is version 55 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. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.