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UniProtKB - Q3T1I9 (RPAP1_RAT)

Entry version 90 (02 Dec 2020)
Sequence version 1 (11 Oct 2005)
Previous versions | rss
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Protein

RNA polymerase II-associated protein 1

Gene

Rpap1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-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 protein 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

Forms an interface between the RNA polymerase II enzyme and chaperone/scaffolding protein, suggesting that it is required to connect RNA polymerase II to regulators of protein complex formation. Required for interaction of the RNA polymerase II complex with acetylated histone H3 (By similarity).By similarity

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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>Keywordsi

Molecular functionDNA-binding, Nucleotidyltransferase, Transferase
Biological processTranscription

<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%5Fand%5Ftaxonomy%5Fsection">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
Recommended name:
RNA polymerase II-associated protein 1
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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:Rpap1
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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>OrganismiRattus norvegicus (Rat)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 identifieri10116 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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 lineageiEukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Myomorpha › Muroidea › Muridae › Murinae › Rattus
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">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
  • UP000002494 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">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: Chromosome 3

Organism-specific databases

Rat genome database

More...RGDi		1590891, Rpap1

<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 & Seán O’Donoghue; Source: COMPARTMENTS

Keywords - Cellular componenti

DNA-directed RNA polymerase, Nucleus

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002848431 – 1400RNA polymerase II-associated protein 1Add BLAST1400

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'PTM / Processing' section specifies the position and type of each modified residue excluding <a href="http://www.uniprot.org/manual/lipid">lipids</a>, <a href="http://www.uniprot.org/manual/carbohyd">glycans</a> and <a href="http://www.uniprot.org/manual/crosslnk">protein cross-links</a>.<p><a href='/help/mod_res' target='_top'>More...</a></p>Modified residuei329PhosphothreonineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		Q3T1I9

PaxDb, a database of protein abundance averages across all three domains of life

More...PaxDbi		Q3T1I9

PRoteomics IDEntifications database

More...PRIDEi		Q3T1I9

PTM databases

iPTMnet integrated resource for PTMs in systems biology context

More...iPTMneti		Q3T1I9

Comprehensive resource for the study of protein post-translational modifications (PTMs) in human, mouse and rat.

More...PhosphoSitePlusi		Q3T1I9

<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		ENSRNOG00000005483, Expressed in skeletal muscle tissue and 20 other tissues

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		Q3T1I9, RN

<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

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Part of an RNA polymerase II complex that contains POLR2A, POLR2B, POLR2C, POLR2D, POLR2E, POLR2F, POLR2G, POLR2H, POLR2I, POLR2J, POLR2K, POLR2L, RPAP1, FCP1 plus the general transcription factors TFIIB and TFIIF.

By similarity

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		10116.ENSRNOP00000007299

<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

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes the position of regions of compositional bias within the protein and the particular amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi834 – 1293Leu-richAdd BLAST460

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

Belongs to the RPAP1 family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG1894, Eukaryota
KOG4732, Eukaryota

Ensembl GeneTree

More...GeneTreei		ENSGT00390000007594

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_005296_1_0_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		Q3T1I9

Identification of Orthologs from Complete Genome Data

More...OMAi		LRPRWCP

Database of Orthologous Groups

More...OrthoDBi		25908at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		Q3T1I9

TreeFam database of animal gene trees

More...TreeFami		TF324391

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR016024, ARM-type_fold
IPR013929, RNA_pol_II_AP1_C
IPR013930, RNA_pol_II_AP1_N
IPR039913, RPAP1/Rba50

The PANTHER Classification System

More...PANTHERi		PTHR21483, PTHR21483, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF08620, RPAP1_C, 1 hit
PF08621, RPAP1_N, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF48371, SSF48371, 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%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">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.

Q3T1I9-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MMLSRPKPGE SEVDLLRFQS QFLEAGAAPA VQLVKGSRRR GDAHPDQLPP 
        60         70         80         90        100
QDHRDVVMLD SLPDLPPALL PAPSKRARPS PGRPLPHDED PEERLNRHDE 
       110        120        130        140        150
HITAVLSKIV ERDTSSVTVT LPVPSGVAFP PVFHRSQERQ VKPAASSKRS 
       160        170        180        190        200
IFAQEIAARR VSDNRAPSAE QVVPSPDAPE GAVPCETPSS KDRGSQLPGR 
       210        220        230        240        250
SHSFHRPNLI TGKGLRSQAA VQEVQTIHEE NVARLQAMDP EEILKEQQQL 
       260        270        280        290        300
LAQLDPSLVA FLRAHNHTRE QTETKATKEQ NPERPSVPVS KEEPIMSTCT 
       310        320        330        340        350
GESGTRDKLE DKLEDKLQPR TPALKLPMTP NKEWLHMDTV ELEKLHWTQD 
       360        370        380        390        400
LPPLRRQQTQ ERMQARFSLQ GELLEPDVDL PTHLGLHHHG EEAERAGYSL 
       410        420        430        440        450
QELFHLTRSQ VSQQRALALH VLSHIVGRAQ AGEFGDRLVG SVLRLLLDAG 
       460        470        480        490        500
FLFLLRFSLD DRIDSVIAAA VRALRALLVA PGDEELLDST FSWYHGASVF 
       510        520        530        540        550
PMMPSHDDKE DEDEDEELTK EKVNRKTPEE GSRPPPDLAR HDVIKGLLAT 
       560        570        580        590        600
NLLPRFRYVL EVTCPGPSVV LDILAVLIRL ARHSLESAMR VLECPRLMET 
       610        620        630        640        650
IVREFLPTSW SPIGVGPAPS LYKVPCAAAM KLLRVLASAG RNIAARLLSS 
       660        670        680        690        700
FDVRSRLCRF IAEAPRDLAL PFEEAEILTT EAFRLWAVAA SYGQGGDLYR 
       710        720        730        740        750
ELYPVLMRAL QTLPPELSTH PLQPLSMQRM ASLLTLLTQL TLAASTQPEA 
       760        770        780        790        800
TSGSVESCVV AIPSSITWTH VSGLKPLVEP CLKQTLKFLR RPDVWNALGP 
       810        820        830        840        850
VPSACLLFLG AYYQTWSQQS GLCPEDWLQD MERFLDEFLL PLLSQPPLGR 
       860        870        880        890        900
MWDSLRDCSP LCNPLSCAST PEALPSLVSL GCAGGCPPLS VAGSASPFPF 
       910        920        930        940        950
LTALLSLINT LGQIHKGLCR QLAVVLTAPG LQNYFLQCVA PAPAPQLTPF 
       960        970        980        990       1000
SAWALRHEYH LQYLVLSLAQ KAATSQPEPA ASTALHHVMA LVLLSRLLPG 
      1010       1020       1030       1040       1050
SEFLAHELLL SCVFRLGFLP ENASGGPEAA DFSDGLSLGN SGDPHCRRGA 
      1060       1070       1080       1090       1100
LLVQACQDLP SIRSCYLAHC SPARASLLTS QALYRGELPR VSSLLLPVPK 
      1110       1120       1130       1140       1150
EPLLPTDWPF QPLIHLYHRA SDTPSGLPAA DTVGITMRVL QWVLVLESWR 
      1160       1170       1180       1190       1200
PEALWAVPPA ARLARLMCVY LVDSELFRET PIQRLVAALL ARLCQPQVLP 
      1210       1220       1230       1240       1250
NLKLDCPLPG LTSFPDLYAS FLDHFEAVSF GDHLFGALVL LPLQRRFSVT 
      1260       1270       1280       1290       1300
LRLALFGEHV GVLRALGLPL AQLPVPLECY TEPAEDSLAL LQLYFRALVT 
      1310       1320       1330       1340       1350
GALHARWCPV LYTVAVAHVN SFVFCQDPKS SDEVKAARRS MLQKVWLLAD 
      1360       1370       1380       1390       1400
KDLRQHLLHY KLPNSSLPEG FELYPQLPRL RQQYLQTLPT EVLQNGGFKT
Length:1,400
Mass (Da):154,759
Last modified:October 11, 2005 - 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:i7E9A525448EBC6B3
GO

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
BC101894 mRNA No translation available.

NCBI Reference Sequences

More...RefSeqi		NP_001029171.1, NM_001033999.2
XP_006234833.1, XM_006234771.3
XP_006234834.1, XM_006234772.3
XP_006234835.1, XM_006234773.3
XP_017447220.1, XM_017591731.1
XP_017447221.1, XM_017591732.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENSRNOT00000007299; ENSRNOP00000007299; ENSRNOG00000005483

Database of genes from NCBI RefSeq genomes

More...GeneIDi		311338

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		rno:311338

UCSC genome browser

More...UCSCi		RGD:1590891, rat

<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
BC101894 mRNA No translation available.
RefSeqiNP_001029171.1, NM_001033999.2
XP_006234833.1, XM_006234771.3
XP_006234834.1, XM_006234772.3
XP_006234835.1, XM_006234773.3
XP_017447220.1, XM_017591731.1
XP_017447221.1, XM_017591732.1

3D structure databases

Database of comparative protein structure models

More...ModBasei		Search...

SWISS-MODEL Interactive Workspace

More...SWISS-MODEL-Workspacei		Submit a new modelling project...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000007299

PTM databases

iPTMnetiQ3T1I9
PhosphoSitePlusiQ3T1I9

Proteomic databases

jPOSTiQ3T1I9
PaxDbiQ3T1I9
PRIDEiQ3T1I9

Genome annotation databases

EnsembliENSRNOT00000007299; ENSRNOP00000007299; ENSRNOG00000005483
GeneIDi311338
KEGGirno:311338
UCSCiRGD:1590891, rat

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		26015
RGDi1590891, Rpap1

Phylogenomic databases

eggNOGiKOG1894, Eukaryota
KOG4732, Eukaryota
GeneTreeiENSGT00390000007594
HOGENOMiCLU_005296_1_0_1
InParanoidiQ3T1I9
OMAiLRPRWCP
OrthoDBi25908at2759
PhylomeDBiQ3T1I9
TreeFamiTF324391

Miscellaneous databases

Protein Ontology

More...PROi		PR:Q3T1I9

Gene expression databases

BgeeiENSRNOG00000005483, Expressed in skeletal muscle tissue and 20 other tissues
GenevisibleiQ3T1I9, RN

Family and domain databases

InterProiView protein in InterPro
IPR016024, ARM-type_fold
IPR013929, RNA_pol_II_AP1_C
IPR013930, RNA_pol_II_AP1_N
IPR039913, RPAP1/Rba50
PANTHERiPTHR21483, PTHR21483, 1 hit
PfamiView protein in Pfam
PF08620, RPAP1_C, 1 hit
PF08621, RPAP1_N, 1 hit
SUPFAMiSSF48371, SSF48371, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...ProtoNeti		Search...

MobiDB: a database of protein disorder and mobility annotations

More...MobiDBi		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 nameiRPAP1_RAT
<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: Q3T1I9
<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%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 17, 2007
Last sequence update: October 11, 2005
Last modified: December 2, 2020
This is version 90 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 statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

<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

Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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