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UniProtKB - B1WC39 (TIGD5_RAT)

Entry version 73 (23 Feb 2022)
Sequence version 1 (20 May 2008)
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Protein

Tigger transposable element derived 5

Gene

Tigd5

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 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

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section specifies the position and type of each DNA-binding domain present within the protein.<p><a href='/help/dna_bind' target='_top'>More...</a></p>DNA bindingi83 – 103H-T-H motifBy similarityAdd BLAST21
DNA bindingi154 – 187H-T-H motifBy similarityAdd BLAST34

<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

  • DNA binding Source: GO_Central
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

<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:
Tigger transposable element derived 5
<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:Tigd5
<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 7
  • UP000234681 Componenti: Chromosome 7

Organism-specific databases

Rat genome database

More...RGDi		1311576, Tigd5

<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

Keywords - Cellular componenti

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_00004167691 – 642Tigger transposable element derived 5Add BLAST642

Proteomic databases

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

More...PaxDbi		B1WC39

<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		ENSRNOG00000008686, Expressed in testis and 20 other tissues

Genevisible search portal to normalized and curated expression data from Genevestigator

More...Genevisiblei		B1WC39, 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

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		10116.ENSRNOP00000066232

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...SMRi		B1WC39

Database of comparative protein structure models

More...ModBasei		Search...

<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>Domaini56 – 107HTH psq-typePROSITE-ProRule annotationAdd BLAST52
Domaini121 – 194HTH CENPB-typePROSITE-ProRule annotationAdd BLAST74
Domaini239 – 364DDE-1Sequence analysisAdd BLAST126

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 – 54DisorderedSequence analysisAdd BLAST54
Regioni198 – 230DisorderedSequence analysisAdd BLAST33
Regioni543 – 583DisorderedSequence analysisAdd BLAST41

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 type of amino acids that are over-represented within those regions.<p><a href='/help/compbias' target='_top'>More...</a></p>Compositional biasi27 – 53Pro residuesSequence analysisAdd BLAST27

<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 tigger transposable element derived protein family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG3105, Eukaryota

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_018294_1_1_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		B1WC39

Identification of Orthologs from Complete Genome Data

More...OMAi		DRAVYAW

Database of Orthologous Groups

More...OrthoDBi		1343623at2759

Database for complete collections of gene phylogenies

More...PhylomeDBi		B1WC39

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
IPR004875, DDE_SF_endonuclease_dom
IPR009057, Homeobox-like_sf
IPR006600, HTH_CenpB_DNA-bd_dom
IPR007889, HTH_Psq
IPR036388, WH-like_DNA-bd_sf

Pfam protein domain database

More...Pfami		View protein in Pfam
PF04218, CENP-B_N, 1 hit
PF03184, DDE_1, 1 hit
PF03221, HTH_Tnp_Tc5, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM00674, CENPB, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF46689, SSF46689, 2 hits

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51253, HTH_CENPB, 1 hit
PS50960, HTH_PSQ, 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.

B1WC39-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MYPASPSAGP ALHPVPHRAR LPRPRCLAEP PRSPAPGPGS TARPPPPAPG 
        60         70         80         90        100
PRPRVAVKMT FRKAYSIKDK LQAIERVKGG ERQASVCRDF GVPGGTLRGW 
       110        120        130        140        150
LKDEPKLRWF LDQLGGEVGT QRKKMRLANE EEIDRAVYSW FLTLRQHGVP 
       160        170        180        190        200
LSGPVIQAQA EAFARQIYGP ECTFKASHGW FWRWQKRHGI SSQRIYGEAE 
       210        220        230        240        250
PPVAGPAPVK EEPAQPSSAG LLLDGTPATL PHSEGGYGDE QIYNANVTGL 
       260        270        280        290        300
YWRLLPEQNA TPGTGDSREP GECSRRWCSD RVTVLLAANL TGSHKLKPLV 
       310        320        330        340        350
IGQLPDPPSL RHHNQDKFPA SYRYSPDAWL SRPLLRGWFF EEFVPGVKRY 
       360        370        380        390        400
LRRSCLQQKA VLLVAHPPCP SWTTSMPAVE ESEGTPRQCQ PELLGSPEEL 
       410        420        430        440        450
QTPDGAVRVL FLSRGNSRAH IPAPLEHGVV AAFKHLYKRE LLRLAVSCAS 
       460        470        480        490        500
GSPLDFMRSF MLKDMLYLAG LSWDLVQAGS IERCWLLGLR AAFEPGQQPA 
       510        520        530        540        550
HQVEEAAEHS RMLSDLTHLA ALAYKRLAPE EVAEWLHLDD DGGLPEGCGE 
       560        570        580        590        600
EVAPAAPPSP ASLPSSIGAG EEEEEEATEQ GGVLVPTAGE AVWGLETALR 
       610        620        630        640 
WLESQDPREV GPLRLVQLRS LITMARRLGG IGPSAAASDD GV
Length:642
Mass (Da):70,268
Last modified:May 20, 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:i8ACF932CFBB2C89E
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
CH473950 Genomic DNA Translation: EDM16036.1
BC161993 mRNA Translation: AAI61993.1

NCBI Reference Sequences

More...RefSeqi		NP_001119740.1, NM_001126268.2

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENSRNOT00000056527; ENSRNOP00000066232; ENSRNOG00000008686

Database of genes from NCBI RefSeq genomes

More...GeneIDi		300034

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		rno:300034

UCSC genome browser

More...UCSCi		RGD:1311576, 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
CH473950 Genomic DNA Translation: EDM16036.1
BC161993 mRNA Translation: AAI61993.1
RefSeqiNP_001119740.1, NM_001126268.2

3D structure databases

SMRiB1WC39
ModBaseiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000066232

Proteomic databases

PaxDbiB1WC39

Genome annotation databases

EnsembliENSRNOT00000056527; ENSRNOP00000066232; ENSRNOG00000008686
GeneIDi300034
KEGGirno:300034
UCSCiRGD:1311576, rat

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		84948
RGDi1311576, Tigd5

Phylogenomic databases

eggNOGiKOG3105, Eukaryota
HOGENOMiCLU_018294_1_1_1
InParanoidiB1WC39
OMAiDRAVYAW
OrthoDBi1343623at2759
PhylomeDBiB1WC39

Miscellaneous databases

Protein Ontology

More...PROi		PR:B1WC39

Gene expression databases

BgeeiENSRNOG00000008686, Expressed in testis and 20 other tissues
GenevisibleiB1WC39, RN

Family and domain databases

Gene3Di1.10.10.10, 1 hit
InterProiView protein in InterPro
IPR004875, DDE_SF_endonuclease_dom
IPR009057, Homeobox-like_sf
IPR006600, HTH_CenpB_DNA-bd_dom
IPR007889, HTH_Psq
IPR036388, WH-like_DNA-bd_sf
PfamiView protein in Pfam
PF04218, CENP-B_N, 1 hit
PF03184, DDE_1, 1 hit
PF03221, HTH_Tnp_Tc5, 1 hit
SMARTiView protein in SMART
SM00674, CENPB, 1 hit
SUPFAMiSSF46689, SSF46689, 2 hits
PROSITEiView protein in PROSITE
PS51253, HTH_CENPB, 1 hit
PS50960, HTH_PSQ, 1 hit

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 nameiTIGD5_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: B1WC39
<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 18, 2012
Last sequence update: May 20, 2008
Last modified: February 23, 2022
This is version 73 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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