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Entry version 127 (29 Sep 2021)
Sequence version 1 (05 Jul 2004)
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Protein

Transcription-repair-coupling factor

Gene

mfd

Organism
Thermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27)
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 protein 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

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

<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-bindingUniRule annotationARBA annotation, HelicaseARBA annotation, Hydrolase
Biological processDNA damage, DNA repairUniRule annotation
LigandATP-binding, Nucleotide-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_and_taxonomy_section">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_and_taxonomy_section">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:TT_C0533Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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>OrganismiThermus thermophilus (strain ATCC BAA-163 / DSM 7039 / HB27)Imported
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 identifieri262724 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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 lineageiBacteriaDeinococcus-ThermusDeinococciThermalesThermaceaeThermus
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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
  • UP000000592 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes_manual">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

CytoplasmUniRule 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
262724.TT_C0533

<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
Q72KB4

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
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_and_domains_section">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>Domaini457 – 618Helicase ATP-bindingInterPro annotationAdd BLAST162
Domaini639 – 796Helicase C-terminalInterPro annotationAdd BLAST158

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and domains' section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili389 – 416Sequence analysisAdd BLAST28
Coiled coili812 – 836Sequence analysisAdd BLAST25

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

Keywords - Domaini

Coiled coilSequence analysis

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG1197, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_005122_4_1_0

Identification of Orthologs from Complete Genome Data

More...
OMAi
VFYIHDR

Database of Orthologous Groups

More...
OrthoDBi
234717at2

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

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

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, 3 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_length">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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

Q72KB4-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEIALERIYG HRLALPQVGA ALLFAQEAPP ALLLVPEARL RRYRDLSAFG
60 70 80 90 100
AKVYVNPGLE ALEEKALFVL SYEEALSPFP EDPEAWRLLL EVGRAYPREA
110 120 130 140 150
LLSRLLKLGY ARDEDYRVLG EVVELGEVRL EFFGDELERL VVRGEERRRH
160 170 180 190 200
VLLPKPGKAE GFTSKKVLHF PGPVYLDTPA LAPKALWPLL AGRPWVALGG
210 220 230 240 250
GVELPPLELG ARPLPPYRGS LKALEKDLAR WLAEGKRVHL FVGHARTLEY
260 270 280 290 300
LKRRLQAFSP LILDRFPGPK GRLALLPGDF EGGAEWGEWV LLTEALVFAT
310 320 330 340 350
GGVRARVRVG EGLSDPGALS PGDYLIHPEH GVGQYLGLET REVLGVKRDY
360 370 380 390 400
LVLRYKGEGK LYLPVEQLPL LKRHPGTTDD PPELSSLGKN EWQRAKEKAR
410 420 430 440 450
KDVEELAGRL LVLQAKRKAT PGRAFPPLPE WDPLVEKGFP YELTPDQKRA
460 470 480 490 500
LEEVLRDLES PHPMDRLVSG DVGFGKTEVA LRAAHRVVGH GAQVAFLVPT
510 520 530 540 550
TLLAEQHGKT FRERFQGLPV RVAVLSRFTP PKEEEAILKG LAEGTVDIVI
560 570 580 590 600
GTHRLLQEDV RFRDLGLLIV DEEHRFGVAQ KERIRELKAE VDTLYLSATP
610 620 630 640 650
IPRTLYSALV GLKDLSSIQT PPPGRKPIKT FLAPFDPLLV REAILFELER
660 670 680 690 700
GGKVFYVHDR VASIEARRRF LESLVPEARI GVVHGQMPES LIEETMLLFA
710 720 730 740 750
EGAYDVLLAT TIIEAGLDVP EANTILIERA DRLGLATLYQ LRGRVGRREE
760 770 780 790 800
EAYAYLFHPP RLTEAAEKRL AAIADLSDLG SGHLLAERDM EIRGVGNLLG
810 820 830 840 850
PEQHGHIRAL SLEVYTELLE EAIRKLKGEV KEERRHVTLD LALSARLPAE
860 870 880 890 900
YVGSLEARSR YYSRFAEAKS LAELSRLVRE LKERYGPLPE EAENFVALAR
910 920 930 940 950
LRLVAERKGV VSITEGLTHL EVVFPRYPLD YDARGLKGLP YRVELTQYPP
960 970
GFRLEKKGLR PRDYPEALME VLYLFADL
Length:978
Mass (Da):109,713
Last modified:July 5, 2004 - 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:iF592C085D34733A1
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
AE017221 Genomic DNA Translation: AAS80881.1

NCBI Reference Sequences

More...
RefSeqi
WP_011172978.1, NC_005835.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAS80881; AAS80881; TT_C0533

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
tth:TT_C0533

<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
AE017221 Genomic DNA Translation: AAS80881.1
RefSeqiWP_011172978.1, NC_005835.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...
PDBei

Protein Data Bank RCSB

More...
RCSB PDBi

Protein Data Bank Japan

More...
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3MLQX-ray2.91E/F/G/H321-387[»]
6M6Aelectron microscopy5.00M1-978[»]
6M6Belectron microscopy4.10M1-978[»]
SMRiQ72KB4
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

STRINGi262724.TT_C0533

Genome annotation databases

EnsemblBacteriaiAAS80881; AAS80881; TT_C0533
KEGGitth:TT_C0533

Phylogenomic databases

eggNOGiCOG1197, Bacteria
HOGENOMiCLU_005122_4_1_0
OMAiVFYIHDR
OrthoDBi234717at2

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
PfamiView protein in Pfam
PF02559, CarD_CdnL_TRCF, 1 hit
PF00270, DEAD, 1 hit
PF00271, Helicase_C, 1 hit
PF03461, TRCF, 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, 3 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 nameiQ72KB4_THET2
<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: Q72KB4
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/TrEMBL: July 5, 2004
Last sequence update: July 5, 2004
Last modified: September 29, 2021
This is version 127 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

3D-structureCombined sources
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