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Protein
Submitted name:

PCF11, cleavage and polyadenylation factor subunit

Gene

pcf11

Organism
Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
Status
Unreviewed-Annotation score:

Annotation score:2 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at transcript leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the ‘protein existence’ evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

  • mRNA binding Source: GO_Central
  • RNA polymerase II complex binding Source: GO_Central

GO - Biological processi

Enzyme and pathway databases

Reactome - a knowledgebase of biological pathways and processes

More...
Reactomei
R-XTR-109688 Cleavage of Growing Transcript in the Termination Region
R-XTR-6807505 RNA polymerase II transcribes snRNA genes
R-XTR-72163 mRNA Splicing - Major Pathway
R-XTR-72187 mRNA 3'-end processing
R-XTR-77595 Processing of Intronless Pre-mRNAs

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Submitted name:
PCF11, cleavage and polyadenylation factor subunitImported
Submitted name:
Pcf11 proteinImported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: ‘Name’, ‘Synonyms’, ‘Ordered locus names’ and ‘ORF names’.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:pcf11Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiXenopus tropicalis (Western clawed frog) (Silurana tropicalis)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the ‘taxonomic identifier’ or ‘taxid’.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri8364 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiAmphibiaBatrachiaAnuraPipoideaPipidaeXenopodinaeXenopusSilurana
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000008143 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">proteome</a> can consist of several components. <br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Unassembled WGS sequence

Organism-specific databases

Xenopus laevis and tropicalis biology and genomics resource

More...
Xenbasei
XB-GENE-5846364 pcf11

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSXETG00000013634 Expressed in 15 organ(s), highest expression level in gastrula

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

GO - Molecular functioni

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
8364.ENSXETP00000060768

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini7 – 135CIDInterPro annotationAdd BLAST129

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Family and domains’ section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili199 – 224Sequence analysisAdd BLAST26

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywords - Domaini

Coiled coilSequence analysis

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG2071 Eukaryota
ENOG410Y266 LUCA

Ensembl GeneTree

More...
GeneTreei
ENSGT00440000034259

The HOVERGEN Database of Homologous Vertebrate Genes

More...
HOVERGENi
HBG058882

KEGG Orthology (KO)

More...
KOi
K14400

Identification of Orthologs from Complete Genome Data

More...
OMAi
ITHRRWY

Database of Orthologous Groups

More...
OrthoDBi
EOG091G05E7

TreeFam database of animal gene trees

More...
TreeFami
TF350069

Family and domain databases

Conserved Domains Database

More...
CDDi
cd03562 CID, 1 hit

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.25.40.90, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006569 CID_dom
IPR008942 ENTH_VHS
IPR006903 RNA_pol_II-bd

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF04818 CTD_bind, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM00582 RPR, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF48464 SSF48464, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51391 CID, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence_length">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>.<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)i

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

B3DLW9-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSAEDEARED ARRDYQSSLE DLTFNSKPHI NMLTILAEEN VQFAKDIVIL
60 70 80 90 100
IEAQIAKARA TEKLPVMYLM DSIVKNVGRD YLAAFAKNLV TTFICVFEKV
110 120 130 140 150
DENTRKSLYK LRSTWDELFP SKKLYALDVR VSQIDPAWPV KPLPPNVNTS
160 170 180 190 200
SIHVNPKFLN KPEESPPAKA SAPSPAPPRA ANSEAQKHLS QEQLIRQQLL
210 220 230 240 250
VKQKQLLELQ QKKLELELEQ TREQLATSLS SSKPVVSPKI PHMPVKAPPP
260 270 280 290 300
VSEKSKVPAP TQRIEKSHEK MPVPTRDPRL VKGNQHSAHG KDQGHKKEMK
310 320 330 340 350
SNMACMPDLK PIKPLLNDKA NASAKQEKAK SNEKLPKREL VQSELKDRSK
360 370 380 390 400
SPSPLKAKLS HMRDKSQGTE NVRDLDISRR DPRLHKHLRN KSDDKDAEPK
410 420 430 440 450
EKRKCDKKEE HKSEHRVAGN RNKPVNGIVP KNETSTNYPD KTKPGRIGNR
460 470 480 490 500
KRSRSPKSRS PAHSPKGRDR RSPKARPRSI SPVHSLPKIG RLRQPGSKQS
510 520 530 540 550
HTEDFNASSR EERIKRNAKT DARDGRRQKR LSEERPQDPV SLISNKSNTE
560 570 580 590 600
PKEDIENWQG PKANKRWKSG WEDNKNSQND DHQGNRPPYQ RHNSWQNSTK
610 620 630 640 650
GVASPRAPKQ QHWLSVDADL KIPKELTSAS KAELLKKANE RFSLGEITHD
660 670 680 690 700
ELLVVVHQIR QLFQYQEEKQ RGSVWDSPTE ENKGALRKKP LLSNPETTYY
710 720 730 740 750
EHKAKLKRTQ VQHAFADREY MDPEYLDMEL DEMAHSGRDG ELSGRAEDKM
760 770 780 790 800
PERNEQFPER QRLSPLLGTR HPDEDAHDGY RRHEDQRELS KGLREEPRPL
810 820 830 840 850
FPERFPRSVP MYDESEEAPY EENADSRMSG NKANPKLPLM EERRPLLDIP
860 870 880 890 900
PLIPVNRGDA PILKSFEEPS NVANVRESSP VNACMPFDGA SGNQVGPQRF
910 920 930 940 950
EAVSGQPVDA HFDSMGANQV ENTRFDGMMG QPKNHQGPQG MQKYDGAQNQ
960 970 980 990 1000
PIVSSQPVGV KRLEGPPGQP MNAARFEGPP SQQLGAPRFE GAAGQPVGPQ
1010 1020 1030 1040 1050
RFEGMQQLGP QRFEGVAGPQ RFDGSPRPLM QQRFDGIPCQ PMRFEQPMRF
1060 1070 1080 1090 1100
EASQGQQLGP VRFEGPVGPR FEVNQPQRFD SGPGPQPLMR FDGPMGQMRP
1110 1120 1130 1140 1150
RFDGTPGNRF DNQRPHMQRF DMPGQPCQRF EGPGPGHQTP PRFDGPMQVQ
1160 1170 1180 1190 1200
PRFDGPLPQR FDGPNQQPRF ELSMNHQGPR FDNIHPPVRQ NAPPFGQSGP
1210 1220 1230 1240 1250
YGEPQNHFHG QPQNMPPQGL PPQGMLPQGL PHQGMQPQGL LPQGMLPNGM
1260 1270 1280 1290 1300
QPQGMLPQGM PPQGIPPQGM QQQGMPLQRP EQRFDLPQGP NFAGPSGPGV
1310 1320 1330 1340 1350
QCFPNQLPRP SGPYFDDKNP KPQGPQFANF NNLPVGNLAP SQPFGPLGGM
1360 1370 1380 1390 1400
SQPAGISQPT AISQPSGMSQ PAFSSQDQNY VPPLGSAGGV FVQPGGSFPF
1410 1420 1430 1440 1450
PENHLGQLDV NELFSKLLST GIIQKVTPNE TSSTQATESS APAAAEEEEE
1460 1470 1480 1490 1500
DADGDGDEDQ DVPDLTTFQM EDLKQRYDSV INRLYTGIQC YSCGMRFTKS
1510 1520 1530 1540 1550
QTDIYADHLD WHYRQNRTEK DVSRKITHRR WYYSLKDWIE FEEIADLEER
1560 1570 1580 1590 1600
AKSQFFEKVH EEVILKTQEA AKEKEFLSVP AGPAGADEIC EICQEQFEQY
1610 1620 1630 1640 1650
WDEEEEEWHL KNAMRMNDKI YHPSCYEDYK NTSSFLDSTP SPSKTLLENP
1660 1670 1680 1690
LNAMLNLVKE EVTEPTCSVK EEPADYTASS CCEIPLLTEI KKEPAEPE
Length:1,698
Mass (Da):191,528
Last modified:July 22, 2008 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i5B739ED26E5B3C3F
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
F6U525F6U525_XENTR
PCF11, cleavage and polyadenylation...
pcf11
1,508Annotation score:

Annotation score:1 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the ‘correct annotation’ for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

More...
GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AAMC01121913 Genomic DNA No translation available.
BC167611 mRNA Translation: AAI67611.1

NCBI Reference Sequences

More...
RefSeqi
NP_001123416.1, NM_001129944.1

UniGene gene-oriented nucleotide sequence clusters

More...
UniGenei
Str.51051

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSXETT00000065917; ENSXETP00000060768; ENSXETG00000013634

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
100170197

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
xtr:100170197

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAMC01121913 Genomic DNA No translation available.
BC167611 mRNA Translation: AAI67611.1
RefSeqiNP_001123416.1, NM_001129944.1
UniGeneiStr.51051

3D structure databases

Database of comparative protein structure models

More...
ModBasei
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

Protein-protein interaction databases

STRINGi8364.ENSXETP00000060768

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSXETT00000065917; ENSXETP00000060768; ENSXETG00000013634
GeneIDi100170197
KEGGixtr:100170197

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
51585
XenbaseiXB-GENE-5846364 pcf11

Phylogenomic databases

eggNOGiKOG2071 Eukaryota
ENOG410Y266 LUCA
GeneTreeiENSGT00440000034259
HOVERGENiHBG058882
KOiK14400
OMAiITHRRWY
OrthoDBiEOG091G05E7
TreeFamiTF350069

Enzyme and pathway databases

ReactomeiR-XTR-109688 Cleavage of Growing Transcript in the Termination Region
R-XTR-6807505 RNA polymerase II transcribes snRNA genes
R-XTR-72163 mRNA Splicing - Major Pathway
R-XTR-72187 mRNA 3'-end processing
R-XTR-77595 Processing of Intronless Pre-mRNAs

Gene expression databases

BgeeiENSXETG00000013634 Expressed in 15 organ(s), highest expression level in gastrula

Family and domain databases

CDDicd03562 CID, 1 hit
Gene3Di1.25.40.90, 1 hit
InterProiView protein in InterPro
IPR006569 CID_dom
IPR008942 ENTH_VHS
IPR006903 RNA_pol_II-bd
PfamiView protein in Pfam
PF04818 CTD_bind, 1 hit
SMARTiView protein in SMART
SM00582 RPR, 1 hit
SUPFAMiSSF48464 SSF48464, 1 hit
PROSITEiView protein in PROSITE
PS51391 CID, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the ‘Entry information’ section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiB3DLW9_XENTR
<p>This subsection of the ‘Entry information’ section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called ‘Primary (citable) accession number’.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: B3DLW9
<p>This subsection of the ‘Entry information’ section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification (‘Last modified’). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: July 22, 2008
Last sequence update: July 22, 2008
Last modified: December 5, 2018
This is version 59 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the ‘Entry information’ section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiUnreviewed (UniProtKB/TrEMBL)

<p>This section contains any relevant information that doesn’t fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteomeImported
UniProt is an ELIXIR core data resource
Main funding by: National Institutes of Health

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