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UniProtKB - I3JJJ1 (I3JJJ1_ORENI)

Entry version 54 (02 Dec 2020)
Sequence version 1 (11 Jul 2012)
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Protein

HMG box domain-containing protein

Gene

pms1

Organism
Oreochromis niloticus (Nile tilapia) (Tilapia nilotica)
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>-Protein inferred from homologyi <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 bindingi533 – 601HMG boxPROSITE-ProRule annotationAdd BLAST69

<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-bindingPROSITE-ProRule annotation
Biological processDNA damageARBA annotation

<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:
HMG box domain-containing proteinInterPro annotation
<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:pms1Imported
<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>OrganismiOreochromis niloticus (Nile tilapia) (Tilapia nilotica)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 identifieri8128 [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 › Actinopterygii › Neopterygii › Teleostei › Neoteleostei › Acanthomorphata › Ovalentaria › Cichlomorphae › Cichliformes › Cichlidae › African cichlids › Pseudocrenilabrinae › Oreochromini › Oreochromis
<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
  • UP000005207 <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

Keywords - Cellular componenti

NucleusPROSITE-ProRule annotation

<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		8128.ENSONIP00000009035

<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>Domaini533 – 601HMG boxInterPro annotationAdd BLAST69

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>Regioni350 – 404DisorderedSequence analysisAdd BLAST55
Regioni489 – 511DisorderedSequence analysisAdd BLAST23
Regioni584 – 621DisorderedSequence analysisAdd BLAST38

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 biasi354 – 404PolarSequence analysisAdd BLAST51
Compositional biasi584 – 601PolyampholyteSequence analysisAdd BLAST18

<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 DNA mismatch repair MutL/HexB family.ARBA annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		KOG1978, Eukaryota

Ensembl GeneTree

More...GeneTreei		ENSGT00940000157085

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		CLU_015755_0_0_1

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		I3JJJ1

Identification of Orthologs from Complete Genome Data

More...OMAi		KEIYECR

Database of Orthologous Groups

More...OrthoDBi		735423at2759

TreeFam database of animal gene trees

More...TreeFami		TF300711

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.30.10, 1 hit
3.30.230.10, 1 hit
3.30.565.10, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR014762, DNA_mismatch_repair_CS
IPR002099, DNA_mismatch_repair_N
IPR013507, DNA_mismatch_S5_2-like
IPR036890, HATPase_C_sf
IPR009071, HMG_box_dom
IPR036910, HMG_box_dom_sf
IPR038973, MutL/Mlh/Pms
IPR031263, PMS1_hom
IPR020568, Ribosomal_S5_D2-typ_fold
IPR014721, Ribosomal_S5_D2-typ_fold_subgr

The PANTHER Classification System

More...PANTHERi		PTHR10073, PTHR10073, 1 hit
PTHR10073:SF43, PTHR10073:SF43, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF01119, DNA_mis_repair, 1 hit
PF00505, HMG_box, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM01340, DNA_mis_repair, 1 hit
SM00398, HMG, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF47095, SSF47095, 1 hit
SSF54211, SSF54211, 1 hit
SSF55874, SSF55874, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00585, mutl, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS00058, DNA_MISMATCH_REPAIR_1, 1 hit
PS50118, HMG_BOX_2, 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>Sequence (1+)i

<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.

This entry has 1 described isoform and 4 potential isoforms that are computationally mapped.Show allAlign All

I3JJJ1-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKQLPPDTVR LLSSSQVITS VVNVVKELIE NSLDAGASSI DVKLENFGLD 
        60         70         80         90        100
RVEVRDNGQG IKAVDTPVMA VRHFTSKICR HEDLEHLETY GFRGEALGSI 
       110        120        130        140        150
CAVAEVAVTT KTEEDEISTQ YTLDLTGKIV SQKPSHLGQG TTVSVMKLFK 
       160        170        180        190        200
NLPVRRQCFS STKKCKEELK KVQDLLMAYA IIKPELRLML VHNKVVLWQK 
       210        220        230        240        250
AKVADNRSAL LATLGPSAIA NLIPCHHHQE QPEILLEGFF PKPGADYSST 
       260        270        280        290        300
STSNPDKTFI FVNNRPVQHK EIMKLLRQHY AAQYADDQAR NRYPTLMLKI 
       310        320        330        340        350
SVPPSSVDVN LTPDKTQVLL HNKETALTAV EALLVSLYGF RPNADLPADK 
       360        370        380        390        400
HLSSESFPSP SSPLQAYSER NAENSHSNDS VPRDGPKQSS ADTSLDRQAS 
       410        420        430        440        450
NCSSSSSIAD DWIVNQIPAD LESNFSLYND EMSQTVTKPA SKSPERLVDN 
       460        470        480        490        500
KMSAATISKV QISAEDWSRG TALTDPVSGE PLQPVIIHRP TKQNHSVPDE 
       510        520        530        540        550
AKSESSSSKK TLNAITEKRA ALTAYDMISN RTMRAPLSPV AIFEKEARAE 
       560        570        580        590        600
VLREKPTASL QDISVAIHER WKNLREEDRK KYEEKAKKHL EHHEQRTKLA 
       610        620        630        640        650
SAEGPREPGV RSHMQGQKRK APLSNQQLLD ELFAAQPQKK MKNPAPKPSQ 
       660        670        680        690        700
PLPCSVAALR LQLQRLSSQS SAAPQGLRLV NRLASQSAWV ILCGQRLMLL 
       710        720        730        740        750
NPFRVEEALL FKRLLENNIL PTASLQNPIQ LTDGSLGGAE YTEALCSMEK 
       760        770        780        790        800
QSPELNGAAF FSDPRLVANG FKVKLTPGVT SAERHLEVTA MADCVPFLGV 
       810        820        830        840        850
EDLREILTAV LHKKARTVRE CRPLKVTNYL QGEAVRLARQ LPTNLSREDV 
       860        870        880        890 
KETLLRMEQQ LGGANHTCIH GRPFLQHLTD IPITEQEVKA LLRPLEL
Length:897
Mass (Da):99,524
Last modified:July 11, 2012 - 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:iF163A530DD250CB8
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 are 4 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A669D5D1A0A669D5D1_ORENI
HMG box domain-containing protein
pms1
829Annotation 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>
A0A669DHW4A0A669DHW4_ORENI
HMG box domain-containing protein
pms1
880Annotation 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>
A0A669EAY4A0A669EAY4_ORENI
HMG box domain-containing protein
pms1
892Annotation 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>
A0A669D3A1A0A669D3A1_ORENI
HMG box domain-containing protein
pms1
830Annotation 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>

Sequence databases

NCBI Reference Sequences

More...RefSeqi		XP_003458888.1, XM_003458840.4
XP_005464088.1, XM_005464031.3
XP_005464089.1, XM_005464032.3

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...Ensembli		ENSONIT00000009040; ENSONIP00000009035; ENSONIG00000007164

Database of genes from NCBI RefSeq genomes

More...GeneIDi		100691048

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		onl:100691048

<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

RefSeqiXP_003458888.1, XM_003458840.4
XP_005464088.1, XM_005464031.3
XP_005464089.1, XM_005464032.3

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

STRINGi8128.ENSONIP00000009035

Genome annotation databases

EnsembliENSONIT00000009040; ENSONIP00000009035; ENSONIG00000007164
GeneIDi100691048
KEGGionl:100691048

Organism-specific databases

Comparative Toxicogenomics Database

More...CTDi		5378

Phylogenomic databases

eggNOGiKOG1978, Eukaryota
GeneTreeiENSGT00940000157085
HOGENOMiCLU_015755_0_0_1
InParanoidiI3JJJ1
OMAiKEIYECR
OrthoDBi735423at2759
TreeFamiTF300711

Family and domain databases

Gene3Di1.10.30.10, 1 hit
3.30.230.10, 1 hit
3.30.565.10, 1 hit
InterProiView protein in InterPro
IPR014762, DNA_mismatch_repair_CS
IPR002099, DNA_mismatch_repair_N
IPR013507, DNA_mismatch_S5_2-like
IPR036890, HATPase_C_sf
IPR009071, HMG_box_dom
IPR036910, HMG_box_dom_sf
IPR038973, MutL/Mlh/Pms
IPR031263, PMS1_hom
IPR020568, Ribosomal_S5_D2-typ_fold
IPR014721, Ribosomal_S5_D2-typ_fold_subgr
PANTHERiPTHR10073, PTHR10073, 1 hit
PTHR10073:SF43, PTHR10073:SF43, 1 hit
PfamiView protein in Pfam
PF01119, DNA_mis_repair, 1 hit
PF00505, HMG_box, 1 hit
SMARTiView protein in SMART
SM01340, DNA_mis_repair, 1 hit
SM00398, HMG, 1 hit
SUPFAMiSSF47095, SSF47095, 1 hit
SSF54211, SSF54211, 1 hit
SSF55874, SSF55874, 1 hit
TIGRFAMsiTIGR00585, mutl, 1 hit
PROSITEiView protein in PROSITE
PS00058, DNA_MISMATCH_REPAIR_1, 1 hit
PS50118, HMG_BOX_2, 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 nameiI3JJJ1_ORENI
<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: I3JJJ1
<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: July 11, 2012
Last sequence update: July 11, 2012
Last modified: December 2, 2020
This is version 54 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
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