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UniProtKB - P46352 (XERD_BACSU)

Entry version 135 (02 Dec 2020)
Sequence version 3 (07 Jul 2009)
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Protein

Tyrosine recombinase XerD

Gene

xerD

Organism
Bacillus subtilis (strain 168)
Status
Reviewed-Annotation score:

Annotation score:3 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

Site-specific tyrosine recombinase, which acts by catalyzing the cutting and rejoining of the recombining DNA molecules. The XerC-XerD complex is essential to convert dimers of the bacterial chromosome into monomers to permit their segregation at cell division. It also contributes to the segregational stability of plasmids.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section is used for enzymes and indicates the residues directly involved in catalysis.<p><a href='/help/act_site' target='_top'>More...</a></p>Active sitei147By similarity1
Active sitei171By similarity1
Active sitei242By similarity1
Active sitei245By similarity1
Active sitei268By similarity1
Active sitei277O-(3'-phospho-DNA)-tyrosine intermediateBy similarity1

<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
Biological processCell cycle, Cell division, Chromosome partition, DNA integration, DNA recombination

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		BSUB:BSU23510-MONOMER

<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:
Tyrosine recombinase XerD
<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:xerD
Synonyms:ripX, ykqM
Ordered Locus Names:BSU23510
<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>OrganismiBacillus subtilis (strain 168)
<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 identifieri224308 [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 lineageiBacteria › Firmicutes › Bacilli › Bacillales › Bacillaceae › Bacillus ›
<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
  • UP000001570 <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

<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

GO - Cellular componenti

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Cytoplasm

<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_00000953711 – 296Tyrosine recombinase XerDAdd BLAST296

Proteomic databases

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

More...PaxDbi		P46352

PRoteomics IDEntifications database

More...PRIDEi		P46352

<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

Forms a cyclic heterotetrameric complex composed of two molecules of XerC and two molecules of XerD.

By similarity

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		224308.BSU23510

<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		P46352

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>Domaini1 – 86Core-binding (CB)PROSITE-ProRule annotationAdd BLAST86
Domaini107 – 290Tyr recombinasePROSITE-ProRule annotationAdd BLAST184

<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 'phage' integrase family. XerD subfamily.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		COG4974, Bacteria

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P46352

Identification of Orthologs from Complete Genome Data

More...OMAi		FASHMLE

Database for complete collections of gene phylogenies

More...PhylomeDBi		P46352

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.150.130, 1 hit
1.10.443.10, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_01808, Recomb_XerC_XerD, 1 hit
MF_01807, Recomb_XerD, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR044068, CB
IPR011010, DNA_brk_join_enz
IPR013762, Integrase-like_cat_sf
IPR002104, Integrase_catalytic
IPR010998, Integrase_recombinase_N
IPR004107, Integrase_SAM-like_N
IPR011932, Recomb_XerD
IPR023009, Tyrosine_recombinase_XerC/XerD

Pfam protein domain database

More...Pfami		View protein in Pfam
PF02899, Phage_int_SAM_1, 1 hit
PF00589, Phage_integrase, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF56349, SSF56349, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR02225, recomb_XerD, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51900, CB, 1 hit
PS51898, TYR_RECOMBINASE, 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.

P46352-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MKDQIKDFIH YVMVERGLSQ NTIVSYERDL KSYSLYLTET LHVTDWNHVT 
        60         70         80         90        100
RIHIIQYLKH LKDSGKSGKT SARHLASIRS FHQFLLREKV TDKDPSVHIE 
       110        120        130        140        150
TQKTERALPK VLALNEVERL LDTPKLTSPF GYRDKAMLEL LYATGIRVSE 
       160        170        180        190        200
MIELKTADVH LSMGFIRCFG KGRKERIVPI GEAAASAIEE YMTKARGKLL 
       210        220        230        240        250
KNNVSDALFL NHHGKQISRQ GFWKNLKKIA LEAGIKKELT PHTLRHSFAT 
       260        270        280        290 
HLLENGADLR AVQEMLGHAD ISTTQIYTHV TKTRLKDVYK QFHPRA
Length:296
Mass (Da):33,994
Last modified:July 7, 2009 - v3
<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:i0541E31F3ECC378E
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Sequence' section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti215 – 235KQISR…LEAGI → NRSAARILEEPEKNRIGSRH in AAA74432 (PubMed:10537218).CuratedAdd BLAST21
Sequence conflicti255N → D in BAA12649 (PubMed:8969508).Curated1

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
D84432 Genomic DNA Translation: BAA12649.1
AL009126 Genomic DNA Translation: CAB14283.2
U32685 Genomic DNA Translation: AAA74432.1

Protein sequence database of the Protein Information Resource

More...PIRi		A69693

NCBI Reference Sequences

More...RefSeqi		NP_390232.2, NC_000964.3
WP_004398985.1, NZ_JNCM01000036.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		CAB14283; CAB14283; BSU23510

Database of genes from NCBI RefSeq genomes

More...GeneIDi		938726

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		bsu:BSU23510

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|224308.179.peg.2561

<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
D84432 Genomic DNA Translation: BAA12649.1
AL009126 Genomic DNA Translation: CAB14283.2
U32685 Genomic DNA Translation: AAA74432.1
PIRiA69693
RefSeqiNP_390232.2, NC_000964.3
WP_004398985.1, NZ_JNCM01000036.1

3D structure databases

SMRiP46352
ModBaseiSearch...

Protein-protein interaction databases

STRINGi224308.BSU23510

Proteomic databases

PaxDbiP46352
PRIDEiP46352

Genome annotation databases

EnsemblBacteriaiCAB14283; CAB14283; BSU23510
GeneIDi938726
KEGGibsu:BSU23510
PATRICifig|224308.179.peg.2561

Phylogenomic databases

eggNOGiCOG4974, Bacteria
InParanoidiP46352
OMAiFASHMLE
PhylomeDBiP46352

Enzyme and pathway databases

BioCyciBSUB:BSU23510-MONOMER

Family and domain databases

Gene3Di1.10.150.130, 1 hit
1.10.443.10, 1 hit
HAMAPiMF_01808, Recomb_XerC_XerD, 1 hit
MF_01807, Recomb_XerD, 1 hit
InterProiView protein in InterPro
IPR044068, CB
IPR011010, DNA_brk_join_enz
IPR013762, Integrase-like_cat_sf
IPR002104, Integrase_catalytic
IPR010998, Integrase_recombinase_N
IPR004107, Integrase_SAM-like_N
IPR011932, Recomb_XerD
IPR023009, Tyrosine_recombinase_XerC/XerD
PfamiView protein in Pfam
PF02899, Phage_int_SAM_1, 1 hit
PF00589, Phage_integrase, 1 hit
SUPFAMiSSF56349, SSF56349, 1 hit
TIGRFAMsiTIGR02225, recomb_XerD, 1 hit
PROSITEiView protein in PROSITE
PS51900, CB, 1 hit
PS51898, TYR_RECOMBINASE, 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 nameiXERD_BACSU
<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: P46352
<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: November 1, 1995
Last sequence update: July 7, 2009
Last modified: December 2, 2020
This is version 135 of the entry and version 3 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 programProkaryotic 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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