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UniProtKB - P37474 (MFD_BACSU)

Entry version 140 (25 May 2022)
Sequence version 1 (01 Oct 1994)
Previous versions | rss
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Protein

Transcription-repair-coupling factor

Gene

mfd

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

Couples transcription and DNA repair by recognizing RNA polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent release of RNAP and its truncated transcript from the DNA, and recruitment of nucleotide excision repair machinery to the damaged site.

UniRule annotation

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes a region in the protein which binds nucleotide phosphates. It always involves more than one amino acid and includes all residues involved in nucleotide-binding.<p><a href='/help/np_bind' target='_top'>More...</a></p>Nucleotide bindingi651 – 658ATPUniRule annotation8

<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, Helicase, Hydrolase
Biological processDNA damage, DNA repair
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		BSUB:BSU00550-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:
Transcription-repair-coupling factorUniRule annotation (EC:3.6.4.-UniRule annotation)
Short name:
TRCFUniRule 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:mfdUniRule annotation
Ordered Locus Names:BSU00550
<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

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_00001021621 – 1177Transcription-repair-coupling factorAdd BLAST1177

Proteomic databases

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

More...PaxDbi		P37474

PRoteomics IDEntifications database

More...PRIDEi		P37474

<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

GO - Molecular functioni

Complete GO annotation on QuickGO ...

Protein-protein interaction databases

STRING: functional protein association networks

More...STRINGi		224308.BSU00550

<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

AlphaFold Protein Structure Database

More...AlphaFoldDBi		P37474

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

More...SMRi		P37474

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>Domaini638 – 799Helicase ATP-bindingUniRule annotationAdd BLAST162
Domaini820 – 974Helicase C-terminalUniRule annotationAdd BLAST155

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and Domains' section describes a short (usually not more than 20 amino acids) conserved sequence motif of biological significance.<p><a href='/help/motif' target='_top'>More...</a></p>Motifi752 – 755DEEQ box4

<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

In the N-terminal section; belongs to the UvrB family.UniRule annotation
In the C-terminal section; belongs to the helicase family. RecG subfamily.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		COG1197, Bacteria

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P37474

Identification of Orthologs from Complete Genome Data

More...OMAi		WAPPCRE

Database for complete collections of gene phylogenies

More...PhylomeDBi		P37474

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		3.40.50.300, 2 hits
3.90.1150.50, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_00969, TRCF, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR036101, CarD-like/TRCF_dom_sf
IPR003711, CarD-like/TRCF_domain
IPR011545, DEAD/DEAH_box_helicase_dom
IPR014001, Helicase_ATP-bd
IPR001650, Helicase_C
IPR004576, Mfd
IPR027417, P-loop_NTPase
IPR037235, TRCF-like_C_D7
IPR005118, TRCF_C
IPR041471, UvrB_inter

Pfam protein domain database

More...Pfami		View protein in Pfam
PF02559, CarD_CdnL_TRCF, 1 hit
PF00270, DEAD, 1 hit
PF00271, Helicase_C, 1 hit
PF03461, TRCF, 1 hit
PF17757, UvrB_inter, 1 hit

Simple Modular Architecture Research Tool; a protein domain database

More...SMARTi		View protein in SMART
SM01058, CarD_TRCF, 1 hit
SM00487, DEXDc, 1 hit
SM00490, HELICc, 1 hit
SM00982, TRCF, 1 hit

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF141259, SSF141259, 1 hit
SSF143517, SSF143517, 1 hit
SSF52540, SSF52540, 4 hits

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR00580, mfd, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS51192, HELICASE_ATP_BIND_1, 1 hit
PS51194, HELICASE_CTER, 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.

P37474-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDNIQTFIKE SDDFKSIING LHEGLKEQLL AGLSGSARSV FTSALANETN 
        60         70         80         90        100
KPIFLITHNL YQAQKVTDDL TSLLEDRSVL LYPVNELISS EIAVASPELR 
       110        120        130        140        150
AQRLDVINRL TNGEAPIVVA PVAAIRRMLP PVEVWKSSQM LIQVGHDIEP 
       160        170        180        190        200
DQLASRLVEV GYERSDMVSA PGEFSIRGGI IDIYPLTSEN PVRIELFDTE 
       210        220        230        240        250
VDSIRSFNSD DQRSIETLTS INIGPAKELI IRPEEKARAM EKIDSGLAAS 
       260        270        280        290        300
LKKLKADKQK EILHANISHD KERLSEGQTD QELVKYLSYF YEKPASLLDY 
       310        320        330        340        350
TPDNTLLILD EVSRIHEMEE QLQKEEAEFI TNLLEEGKIL HDIRLSFSFQ 
       360        370        380        390        400
KIVAEQKRPL LYYSLFLRHV HHTSPQNIVN VSGRQMQSFH GQMNVLAGEM 
       410        420        430        440        450
ERFKKSNFTV VFLGANKERT QKLSSVLADY DIEAAMTDSK KALVQGQVYI 
       460        470        480        490        500
MEGELQSGFE LPLMKLAVIT EEELFKNRVK KKPRKQKLTN AERIKSYSEL 
       510        520        530        540        550
QIGDYVVHIN HGIGKYLGIE TLEINGIHKD YLNIHYQGSD KLYVPVEQID 
       560        570        580        590        600
QVQKYVGSEG KEPKLYKLGG SEWKRVKKKV ETSVQDIADD LIKLYAEREA 
       610        620        630        640        650
SKGYAFSPDH EMQREFESAF PYQETEDQLR SIHEIKKDME RERPMDRLLC 
       660        670        680        690        700
GDVGYGKTEV AIRAAFKAIG DGKQVALLVP TTILAQQHYE TIKERFQDYP 
       710        720        730        740        750
INIGLLSRFR TRKEANETIK GLKNGTVDIV IGTHRLLSKD VVYKDLGLLI 
       760        770        780        790        800
IDEEQRFGVT HKEKIKQIKA NVDVLTLTAT PIPRTLHMSM LGVRDLSVIE 
       810        820        830        840        850
TPPENRFPVQ TYVVEYNGAL VREAIERELA RGGQVYFLYN RVEDIERKAD 
       860        870        880        890        900
EISMLVPDAK VAYAHGKMTE NELETVMLSF LEGESDVLVS TTIIETGVDI 
       910        920        930        940        950
PNVNTLIVFD ADKMGLSQLY QLRGRVGRSN RVAYAYFTYR RDKVLTEVAE 
       960        970        980        990       1000
KRLQAIKEFT ELGSGFKIAM RDLTIRGAGN LLGAQQHGFI DSVGFDLYSQ 
      1010       1020       1030       1040       1050
MLKEAIEERK GDTAKTEQFE TEIDVELDAY IPETYIQDGK QKIDMYKRFR 
      1060       1070       1080       1090       1100
SVATIEEKNE LQDEMIDRFG NYPKEVEYLF TVAEMKVYAR QERVELIKQD 
      1110       1120       1130       1140       1150
KDAVRLTISE EASAEIDGQK LFELGNQYGR QIGLGMEGKK LKISIQTKGR 
      1160       1170 
SADEWLDTVL GMLKGLKDVK KQTISST
Length:1,177
Mass (Da):133,812
Last modified:October 1, 1994 - 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:i70938BC354424687
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
D26185 Genomic DNA Translation: BAA05290.1
AL009126 Genomic DNA Translation: CAB11831.1

Protein sequence database of the Protein Information Resource

More...PIRi		S66085

NCBI Reference Sequences

More...RefSeqi		NP_387936.1, NC_000964.3
WP_003243453.1, NZ_JNCM01000028.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		CAB11831; CAB11831; BSU_00550

Database of genes from NCBI RefSeq genomes

More...GeneIDi		936653

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		bsu:BSU00550

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|224308.179.peg.55

<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
D26185 Genomic DNA Translation: BAA05290.1
AL009126 Genomic DNA Translation: CAB11831.1
PIRiS66085
RefSeqiNP_387936.1, NC_000964.3
WP_003243453.1, NZ_JNCM01000028.1

3D structure databases

AlphaFoldDBiP37474
SMRiP37474
ModBaseiSearch...

Protein-protein interaction databases

STRINGi224308.BSU00550

Proteomic databases

PaxDbiP37474
PRIDEiP37474

Protocols and materials databases

The DNASU plasmid repository

More...DNASUi		936653

Genome annotation databases

EnsemblBacteriaiCAB11831; CAB11831; BSU_00550
GeneIDi936653
KEGGibsu:BSU00550
PATRICifig|224308.179.peg.55

Phylogenomic databases

eggNOGiCOG1197, Bacteria
InParanoidiP37474
OMAiWAPPCRE
PhylomeDBiP37474

Enzyme and pathway databases

BioCyciBSUB:BSU00550-MONOMER

Family and domain databases

Gene3Di3.40.50.300, 2 hits
3.90.1150.50, 1 hit
HAMAPiMF_00969, TRCF, 1 hit
InterProiView protein in InterPro
IPR036101, CarD-like/TRCF_dom_sf
IPR003711, CarD-like/TRCF_domain
IPR011545, DEAD/DEAH_box_helicase_dom
IPR014001, Helicase_ATP-bd
IPR001650, Helicase_C
IPR004576, Mfd
IPR027417, P-loop_NTPase
IPR037235, TRCF-like_C_D7
IPR005118, TRCF_C
IPR041471, UvrB_inter
PfamiView protein in Pfam
PF02559, CarD_CdnL_TRCF, 1 hit
PF00270, DEAD, 1 hit
PF00271, Helicase_C, 1 hit
PF03461, TRCF, 1 hit
PF17757, UvrB_inter, 1 hit
SMARTiView protein in SMART
SM01058, CarD_TRCF, 1 hit
SM00487, DEXDc, 1 hit
SM00490, HELICc, 1 hit
SM00982, TRCF, 1 hit
SUPFAMiSSF141259, SSF141259, 1 hit
SSF143517, SSF143517, 1 hit
SSF52540, SSF52540, 4 hits
TIGRFAMsiTIGR00580, mfd, 1 hit
PROSITEiView protein in PROSITE
PS51192, HELICASE_ATP_BIND_1, 1 hit
PS51194, HELICASE_CTER, 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 nameiMFD_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: P37474
<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: October 1, 1994
Last sequence update: October 1, 1994
Last modified: May 25, 2022
This is version 140 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 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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