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Entry version 76 (12 Aug 2020)
Sequence version 1 (18 Mar 2008)
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Protein
Submitted name:

DNA-binding protein RFX5

Gene

RFX5

Organism
Callithrix jacchus (White-tufted-ear marmoset)
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

GO - Biological processi

<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-bindingImported

<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:
DNA-binding protein RFX5Imported
Submitted name:
Regulatory factor X, 5, isoform 1 (Predicted)Imported
<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
<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>OrganismiCallithrix jacchus (White-tufted-ear marmoset)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 identifieri9483 [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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniPlatyrrhiniCebidaeCallitrichinaeCallithrixCallithrix
<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
  • UP000008225 <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: Unplaced

<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 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

Interacts with KDM5B.

ARBA annotation

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
9483.ENSCJAP00000044732

<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>Domaini92 – 168RFX-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 – 28DisorderedSequence analysisAdd BLAST28
Regioni252 – 314DisorderedSequence analysisAdd BLAST63
Regioni392 – 618DisorderedSequence analysisAdd BLAST227

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 biasi252 – 289PolyampholyteSequence analysisAdd BLAST38
Compositional biasi422 – 436PolyampholyteSequence analysisAdd BLAST15
Compositional biasi452 – 466PolyampholyteSequence analysisAdd BLAST15
Compositional biasi481 – 503PolarSequence analysisAdd BLAST23

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)

More...
KOi
K08061

Identification of Orthologs from Complete Genome Data

More...
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.

B0KWC2-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MAEDEPDAKS PKTGGRAPPG GAEAGEPTTL LQRLRGTISK AVQNKVEGIL
60 70 80 90 100
QDVQKFSDND KLYLYLQLPS GPSTGDKSSE PSTLSNEEYM YAYRWIRNHL
110 120 130 140 150
EEHTDTCLPK QSVYDAYRKY CESLACCRPL STANFGKIIR EIFPDIKARR
160 170 180 190 200
LGGRGQSKYC YSGIRRKTLV SMPPLPGLDL KGSESPEMGP EVTPAPRDEL
210 220 230 240 250
VEAACALTCD WAERILKRSF SSIVEVARFL LQQHLISARS AHAHVLKAMG
260 270 280 290 300
LAEEDEHAPR ERLSKSKNGL ENPEGGAHKK LERPAQPPKD LEARAGAGPL
310 320 330 340 350
ARGERKKSAV ESSAPGANNL QVNALVARLP LLLPRAPRSL IPPIPVSPPI
360 370 380 390 400
LAPRLPSGAL KVATLPLSSR AGAPPAAVPI INMILPTVPA LPAPGPGPGP
410 420 430 440 450
GRAPPAGLTQ PRGTENREVG IGGDPGPHDK GVKRTAEVLV SEASGQDPPA
460 470 480 490 500
KAAKQDVEDT AGDAKRKRGR PRKKSGGSGE RNAAPQKSAT AVDSAQSSRL
510 520 530 540 550
PWETWGSGGE GNSARGAERP GPMGEAERGA VLAQGQEDGT VSKGGRGPSS
560 570 580 590 600
RHTKEAEDKI PLVPSKVSVI KGSRSQKEAF PLAKGEAGTA AQGNKDLKEH
610
VLQSSLSQEH KDPKATPP
Length:618
Mass (Da):65,542
Last modified:March 18, 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:iDFA19DA2E9C6DFD3
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
DP000572 Genomic DNA Translation: ABY82094.1
GAMT01004631 mRNA Translation: JAB07230.1
GAMS01005553 mRNA Translation: JAB17583.1
GAMR01003453 mRNA Translation: JAB30479.1
GAMQ01004387 mRNA Translation: JAB37464.1
GAMP01008797 mRNA Translation: JAB43958.1

NCBI Reference Sequences

More...
RefSeqi
XP_008982603.1, XM_008984355.2
XP_008982604.1, XM_008984356.2
XP_008982605.1, XM_008984357.2
XP_008982606.1, XM_008984358.1
XP_008982608.1, XM_008984360.2
XP_008982609.1, XM_008984361.2

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSCJAT00000097067; ENSCJAP00000076471; ENSCJAG00000063255

Database of genes from NCBI RefSeq genomes

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GeneIDi
100386724

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
cjc:100386724

<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
DP000572 Genomic DNA Translation: ABY82094.1
GAMT01004631 mRNA Translation: JAB07230.1
GAMS01005553 mRNA Translation: JAB17583.1
GAMR01003453 mRNA Translation: JAB30479.1
GAMQ01004387 mRNA Translation: JAB37464.1
GAMP01008797 mRNA Translation: JAB43958.1
RefSeqiXP_008982603.1, XM_008984355.2
XP_008982604.1, XM_008984356.2
XP_008982605.1, XM_008984357.2
XP_008982606.1, XM_008984358.1
XP_008982608.1, XM_008984360.2
XP_008982609.1, XM_008984361.2

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

STRINGi9483.ENSCJAP00000044732

Genome annotation databases

EnsembliENSCJAT00000097067; ENSCJAP00000076471; ENSCJAG00000063255
GeneIDi100386724
KEGGicjc:100386724

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
5993

Phylogenomic databases

eggNOGiKOG3712, Eukaryota
GeneTreeiENSGT00980000198574
HOGENOMiCLU_030500_0_0_1
KOiK08061
OMAiNPEGGAH
OrthoDBi67697at2759
TreeFamiTF321340

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 nameiB0KWC2_CALJA
<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: B0KWC2
<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: March 18, 2008
Last sequence update: March 18, 2008
Last modified: August 12, 2020
This is version 76 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

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

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