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Entry version 129 (29 Sep 2021)
Sequence version 1 (01 Jan 1998)
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Protein

Transcription-repair-coupling factor

Gene

mfd

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
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_section">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 bindingi512 – 519ATPUniRule 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

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

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
HPY:HP1541-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_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:HP_1541
<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>OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
<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 identifieri85962 [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 lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
<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
  • UP000000429 <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

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_00001021681 – 999Transcription-repair-coupling factorAdd BLAST999

Proteomic databases

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

More...
PaxDbi
O26066

PRoteomics IDEntifications database

More...
PRIDEi
O26066

<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

Database of interacting proteins

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DIPi
DIP-3189N

Protein interaction database and analysis system

More...
IntActi
O26066, 8 interactors

Molecular INTeraction database

More...
MINTi
O26066

STRING: functional protein association networks

More...
STRINGi
85962.C694_07985

<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
O26066

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_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>Domaini499 – 656Helicase ATP-bindingUniRule annotationAdd BLAST158
Domaini677 – 833Helicase C-terminalUniRule annotationAdd BLAST157

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>Motifi609 – 612DEEH 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

Identification of Orthologs from Complete Genome Data

More...
OMAi
NKKAFCY

Database for complete collections of gene phylogenies

More...
PhylomeDBi
O26066

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, 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.

O26066-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MIQSSLYRAL NKGFDYQILA CKDFKESELA KEVISYFKPN TKAILFPEFR
60 70 80 90 100
AKKNDDLRSF FEEFLQLLGG LREFYQALEN KQETIIIAPI SALLHPLPKK
110 120 130 140 150
ELLESFKITL LEKYNLKDLK DKLFYYGYEI LDLVEVEGEA SFRGDIVDIY
160 170 180 190 200
APNSKAYRLS FFDTECESIK EFDPITQMSL KEDLLEIEIP PTLFSLDESS
210 220 230 240 250
YKDLKTKVEQ SPLNSFSKDL TSFGLWFLGE KAQDLLIVYK SIISPRALEE
260 270 280 290 300
IQELASLNEL DCERFKFLKV LENAQGYEDL EIHAHALEGF IALHSNHKIT
310 320 330 340 350
LLAPNKTILD NAISALDAGN MECVIAPFVL NFKTPDGIFI SLNSFERKKK
360 370 380 390 400
RQKSKLALNE LNPGEWVVHD DYGVGVFSQL VQHSVLGSKR DFLEIAYLGE
410 420 430 440 450
DKLLLPVENL HLIARYVAQS DSVPAKDRLG KGSFLKLKAK VRTKLLEIAS
460 470 480 490 500
KIIELAAERN LILGKKMDVH LAELEVFKSH AGFEYTSDQE KAIAEISKDL
510 520 530 540 550
SSHRVMDRLL SGDVGFGKTE VAMHAIFCAF LNGFQSALVV PTTLLAHQHF
560 570 580 590 600
ETLRARFENF GVKVARLDRY ASEKNKLLKA VELGQVDALI GTHAILGAKF
610 620 630 640 650
KNLGLVVVDE EHKFGVKQKE ALKELSKSVH FLSMSATPIP RTLNMALSQI
660 670 680 690 700
KGISSLKTPP TDRKPSRTFL KEKNDELLKE IIYRELRRNG QIFYIHNHIA
710 720 730 740 750
SILKVKTKLE DLIPKLKIAI LHSQINANES EEIMLEFAKG NYQVLLCTSI
760 770 780 790 800
VESGIHLPNA NTIIIDNAQN FGLADLHQLR GRVGRGKKEG FCYFLIEDQK
810 820 830 840 850
SLNEQALKRL LALEKNSYLG SGESVAYHDL EIRGGGNLLG QDQSGHIKNI
860 870 880 890 900
GYALYTRMLE DAIYELSGGK KRLEKSVEIQ LGVSAFLNPE LIASDSLRLD
910 920 930 940 950
LYRRLSLCEN TDEVGQIHEE IEDRFGKIDD LSAQFLQIIT LKILANQLGI
960 970 980 990
IKLSNFNQNI TITYSDEKKE SLKAPSKDDN DILETLLKHL RAQISLKRR
Length:999
Mass (Da):113,090
Last modified:January 1, 1998 - 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:iEE550EFB2A2946E5
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
AE000511 Genomic DNA Translation: AAD08581.1

Protein sequence database of the Protein Information Resource

More...
PIRi
E64712

NCBI Reference Sequences

More...
RefSeqi
NP_208332.1, NC_000915.1
WP_000616334.1, NC_018939.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAD08581; AAD08581; HP_1541

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
hpy:HP1541

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|85962.47.peg.1657

<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
AE000511 Genomic DNA Translation: AAD08581.1
PIRiE64712
RefSeqiNP_208332.1, NC_000915.1
WP_000616334.1, NC_018939.1

3D structure databases

SMRiO26066
ModBaseiSearch...

Protein-protein interaction databases

DIPiDIP-3189N
IntActiO26066, 8 interactors
MINTiO26066
STRINGi85962.C694_07985

Proteomic databases

PaxDbiO26066
PRIDEiO26066

Genome annotation databases

EnsemblBacteriaiAAD08581; AAD08581; HP_1541
KEGGihpy:HP1541
PATRICifig|85962.47.peg.1657

Phylogenomic databases

eggNOGiCOG1197, Bacteria
OMAiNKKAFCY
PhylomeDBiO26066

Enzyme and pathway databases

BioCyciHPY:HP1541-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, 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 nameiMFD_HELPY
<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: O26066
<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/Swiss-Prot: December 15, 1998
Last sequence update: January 1, 1998
Last modified: September 29, 2021
This is version 129 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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