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Entry version 83 (12 Aug 2020)
Sequence version 1 (20 Apr 2010)
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Protein
Submitted name:

Regulatory factor X, 5 (Influences HLA class II expression) (Predicted)

Gene

Rfx5

Organism
Rattus norvegicus (Rat)
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 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

<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

GO - Biological processi

<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
Submitted name:
Regulatory factor X, 5 (Influences HLA class II expression) (Predicted)Imported
Submitted name:
Regulatory factor X5Imported
<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:Rfx5Imported
Synonyms:Rfx5_predictedImported
ORF Names:rCG_51773Imported
<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)Imported
<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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
<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 2

Organism-specific databases

Rat genome database

More...
RGDi
1311677, Rfx5

<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

<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
ENSRNOG00000021012, Expressed in brain and 22 other tissues

<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

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
10116.ENSRNOP00000060480

<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%5Fand%5Fdomains%5Fsection">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>Domaini91 – 167RFX-type winged-helixInterPro annotationAdd BLAST77

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a region of interest that cannot be described in other subsections.<p><a href='/help/region' target='_top'>More...</a></p>Regioni1 – 29DisorderedSequence analysisAdd BLAST29
Regioni249 – 316DisorderedSequence analysisAdd BLAST68
Regioni380 – 626DisorderedSequence analysisAdd BLAST247
Regioni650 – 681DisorderedSequence analysisAdd BLAST32

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 biasi249 – 267PolyampholyteSequence analysisAdd BLAST19
Compositional biasi283 – 309PolyampholyteSequence analysisAdd BLAST27
Compositional biasi483 – 500PolyampholyteSequence analysisAdd BLAST18
Compositional biasi512 – 530PolyampholyteSequence analysisAdd BLAST19
Compositional biasi667 – 681PolyampholyteSequence analysisAdd BLAST15

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
KOG3712, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00980000198574

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_030500_0_0_1

KEGG Orthology (KO)

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KOi
K08061

Identification of Orthologs from Complete Genome Data

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OMAi
NPEGGAH

Database of Orthologous Groups

More...
OrthoDBi
67697at2759

TreeFam database of animal gene trees

More...
TreeFami
TF321340

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.10.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR003150, DNA-bd_RFX
IPR039779, RFX-like
IPR033486, RFX5
IPR029298, RFX5_C
IPR040889, RFX5_N
IPR036388, WH-like_DNA-bd_sf
IPR036390, WH_DNA-bd_sf

The PANTHER Classification System

More...
PANTHERi
PTHR12619, PTHR12619, 1 hit
PTHR12619:SF18, PTHR12619:SF18, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF14621, RFX5_DNA_bdg, 1 hit
PF18326, RFX5_N, 1 hit
PF02257, RFX_DNA_binding, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM01306, RFX5_DNA_bdg, 1 hit

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF46785, SSF46785, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51526, RFX_DBD, 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.

D3ZHD7-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAEDNPDAKS PKTGARPQGG AEAGEPTTLL QRLRGTISKA VQNKVEGILQ
60 70 80 90 100
EVQKFSDNDK LYLYLQLPSG PSTGDKSSEP SILSNEEYMY AYRWIRNHLE
110 120 130 140 150
EHMDTCLPKQ SVYDAYRKYC ESLACCRPLS TANFGKIIRE IFPDIKARRL
160 170 180 190 200
GGRGQSKYCY SGIRRKTLVS MPPLPGLDLK GSESPEMGPE VSPAPRDELV
210 220 230 240 250
EAACALTCDW AERILKRSFS SIVQVARYLL QQHLISARSA HAHVLKAGGL
260 270 280 290 300
AEEEERGPRE RSSCKSKNGV ENLEGGGPKK PERPAQPPKE LEARAGTDSP
310 320 330 340 350
GRSERKKSVI DSSVPAASKP QVNALVARLP VLLPRAPRSL ITPISGTLKV
360 370 380 390 400
ATLPLPTRVG GPQAAVPIIN MILPPVPTLS GPGPGPGLGP RFGPGPGSGS
410 420 430 440 450
GPGLGAGPGP GPGPGLGAGP GLGPGLGAGV GPGPGLGAGP GQRPGLRAGV
460 470 480 490 500
GPGPGLGAGL GLGPGRVPPR APILPRGTES REVGISGDPR PHDKGVKRTA
510 520 530 540 550
EVPLSEASGQ DPPVKEMKHE TEDTVSEAKR KRGRPRKKTG GSGERNATPE
560 570 580 590 600
KSAAAVNSPR SPRLLWETWG SKRENNLVGR PERPGAVGEA QRETVLAQGQ
610 620 630 640 650
EDGAVSKGEK SLSSQEAKEA EDKIPPVTSK VSVIKGRIQK EALQLVKGEA
660 670 680
DAATQGNKGL KGRVLQSSLT HEHKDPKATP P
Length:681
Mass (Da):71,535
Last modified:April 20, 2010 - 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:iCA92393B16C1A883
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

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EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

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DDBJi
Links Updated
AC130969 Genomic DNA No translation available.
CH474015 Genomic DNA Translation: EDL85766.1

NCBI Reference Sequences

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RefSeqi
NP_001101164.1, NM_001107694.1
XP_006232938.1, XM_006232876.3
XP_006232940.1, XM_006232878.3
XP_008759522.1, XM_008761300.2

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSRNOT00000068528; ENSRNOP00000060480; ENSRNOG00000021012

Database of genes from NCBI RefSeq genomes

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GeneIDi
310659

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
rno:310659

<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
AC130969 Genomic DNA No translation available.
CH474015 Genomic DNA Translation: EDL85766.1
RefSeqiNP_001101164.1, NM_001107694.1
XP_006232938.1, XM_006232876.3
XP_006232940.1, XM_006232878.3
XP_008759522.1, XM_008761300.2

3D structure databases

Database of comparative protein structure models

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ModBasei
Search...

SWISS-MODEL Interactive Workspace

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

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000060480

Genome annotation databases

EnsembliENSRNOT00000068528; ENSRNOP00000060480; ENSRNOG00000021012
GeneIDi310659
KEGGirno:310659

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
5993
RGDi1311677, Rfx5

Phylogenomic databases

eggNOGiKOG3712, Eukaryota
GeneTreeiENSGT00980000198574
HOGENOMiCLU_030500_0_0_1
KOiK08061
OMAiNPEGGAH
OrthoDBi67697at2759
TreeFamiTF321340

Gene expression databases

BgeeiENSRNOG00000021012, Expressed in brain and 22 other tissues

Family and domain databases

Gene3Di1.10.10.10, 1 hit
InterProiView protein in InterPro
IPR003150, DNA-bd_RFX
IPR039779, RFX-like
IPR033486, RFX5
IPR029298, RFX5_C
IPR040889, RFX5_N
IPR036388, WH-like_DNA-bd_sf
IPR036390, WH_DNA-bd_sf
PANTHERiPTHR12619, PTHR12619, 1 hit
PTHR12619:SF18, PTHR12619:SF18, 1 hit
PfamiView protein in Pfam
PF14621, RFX5_DNA_bdg, 1 hit
PF18326, RFX5_N, 1 hit
PF02257, RFX_DNA_binding, 1 hit
SMARTiView protein in SMART
SM01306, RFX5_DNA_bdg, 1 hit
SUPFAMiSSF46785, SSF46785, 1 hit
PROSITEiView protein in PROSITE
PS51526, RFX_DBD, 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 nameiD3ZHD7_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: D3ZHD7
<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/TrEMBL: April 20, 2010
Last sequence update: April 20, 2010
Last modified: August 12, 2020
This is version 83 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

<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 - Technical termi

Proteomics identificationCombined sources, Reference proteomeImported
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