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Q4UMJ0

- MFD_RICFE

UniProt

Q4UMJ0 - MFD_RICFE

Protein

Transcription-repair-coupling factor

Gene

mfd

Organism
Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 73 (01 Oct 2014)
      Sequence version 1 (05 Jul 2005)
      Previous versions | rss
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    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)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi605 – 6128ATPUniRule annotation

    GO - Molecular functioni

    1. ATP binding Source: UniProtKB-HAMAP
    2. damaged DNA binding Source: InterPro
    3. helicase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. regulation of transcription, DNA-templated Source: UniProtKB-HAMAP
    2. transcription-coupled nucleotide-excision repair, DNA damage recognition Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Helicase, Hydrolase

    Keywords - Biological processi

    DNA damage, DNA repair

    Keywords - Ligandi

    ATP-binding, DNA-binding, Nucleotide-binding

    Enzyme and pathway databases

    BioCyciRFEL315456:GKEK-380-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Transcription-repair-coupling factorUniRule annotation (EC:3.6.4.-UniRule annotation)
    Short name:
    TRCFUniRule annotation
    Gene namesi
    Name:mfdUniRule annotation
    Ordered Locus Names:RF_0367
    OrganismiRickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)
    Taxonomic identifieri315456 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiaspotted fever group
    ProteomesiUP000008548: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Cytoplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 11421142Transcription-repair-coupling factorPRO_0000281073Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi315456.RF_0367.

    Structurei

    3D structure databases

    ProteinModelPortaliQ4UMJ0.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini592 – 757166Helicase ATP-bindingUniRule annotationAdd
    BLAST
    Domaini778 – 932155Helicase C-terminalUniRule annotationAdd
    BLAST

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi710 – 7134DEEQ box

    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
    Contains 1 helicase ATP-binding domain.UniRule annotation
    Contains 1 helicase C-terminal domain.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1197.
    HOGENOMiHOG000216592.
    KOiK03723.
    OMAiQVLEHGE.
    OrthoDBiEOG6FNHKW.

    Family and domain databases

    Gene3Di3.40.50.300. 2 hits.
    HAMAPiMF_00969. TRCF.
    InterProiIPR003711. CarD-like/TRCF_domain.
    IPR011545. DNA/RNA_helicase_DEAD/DEAH_N.
    IPR014001. Helicase_ATP-bd.
    IPR001650. Helicase_C.
    IPR004576. Mfd.
    IPR027417. P-loop_NTPase.
    IPR005118. TRCF_C.
    [Graphical view]
    PfamiPF02559. CarD_CdnL_TRCF. 1 hit.
    PF00270. DEAD. 1 hit.
    PF00271. Helicase_C. 1 hit.
    PF03461. TRCF. 1 hit.
    [Graphical view]
    SMARTiSM01058. CarD_TRCF. 1 hit.
    SM00487. DEXDc. 1 hit.
    SM00490. HELICc. 1 hit.
    SM00982. TRCF. 1 hit.
    [Graphical view]
    SUPFAMiSSF141259. SSF141259. 1 hit.
    SSF52540. SSF52540. 3 hits.
    TIGRFAMsiTIGR00580. mfd. 1 hit.
    PROSITEiPS51192. HELICASE_ATP_BIND_1. 1 hit.
    PS51194. HELICASE_CTER. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q4UMJ0-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLQQKFPATA KSFFATHNFT KNLKQDFILS SSNEDEALQL YKQALFFSSN     50
    ENIYYFPSYD TIPYDHTSPN ANILSRRAEI LTKLTTNNSN GKLLITYAAN 100
    LLNKLPPKDF FSKYFLKLSP KMKFTTDELA MFLVENSFTR NASSIDVGEF 150
    AVRGEIIDII LPGPKAYRIN FSWDYIESIK EFDIDTQIST KSCSELVISP 200
    ANEIVLNSET NGNFKNNYLR NFGVNHTDNP LYEAVISGRK FAGYEQLLPL 250
    FYNSCSSLVD YLNDPIFIFD NLSKQAILEF EHSYNDFYSA RSEVNKLKFN 300
    SFYPTLSPTD LYFTASEITE LLEQKNNIFI SYENSEQATL IENISSASFI 350
    EKKTVFDKLF EIIKAHSSKK IVIGAASLSG LERIKSITQN YEYKYNEINK 400
    LDEAKASVIN VGIIPLNQSF YTKEYLFITA SELLEEKSSS TNTNKKLKNI 450
    LLELDNLAEG EFVVHKDHGI GQFLKLEALE IKGKLHDFLK ILYAGNDKLY 500
    IPVENIEVIK KYGNDNAELD KLGSSSWQRS KAKLKNRIKE IALHLIQIAA 550
    KRKLNSSASV EFDLEEYDKF CANFPFSETE DQLTAINDIK EDLRNGMLMD 600
    RLICGDVGFG KTEVAMRAVF MVAKSLNEHL PQVAVVVPTT ILCSQHFSRF 650
    IERFKGFGLN IKQLSSVISA KEAKIIRSEL ESGKINIIIG THSLLHKNTK 700
    FFNLKLLIID EEQHFGVGQK EFLKSLKSSS HVLAMSATPI PRTLQMSMTG 750
    LKELSIIATP PLNRLEVRTM VMPFDPVIIR DALLREHFRG GRSFYVVPRI 800
    KDIEDIEKQL KQIVPELSYK IAHGKMTPSK IDEVMSEFYA GKFDILVSTT 850
    IIESGIDIAE ANTMVIHKAD MLGLSQLYQL RGRIGRGKVR GYAYLTVASH 900
    KKMTSHSLRR LEIIQNSCAL GSGFTIASHD MDLRGFGNLI GEEQSGQIKE 950
    VGTELYQEML EEQIAIFKDE PIVSEQLFIP TINLGLSVFI PDNYISDSAL 1000
    KLGLYRRIGN LSNEIEVEKF KDEMIDRFGS LPIEFNNLLD IVKIKLLCFK 1050
    LNIENLDSGD NGFVIKFYKN ADMTDKILKF VSTYSNQAKI KPDNKLVYIK 1100
    KLVDKNIIVE VNQLLWKLGG CRLDVIPNTS LRGAKRRGNL IK 1142
    Length:1,142
    Mass (Da):129,663
    Last modified:July 5, 2005 - v1
    Checksum:iCC689B86E2253EC0
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000053 Genomic DNA. Translation: AAY61218.1.
    RefSeqiWP_011270706.1. NC_007109.1.
    YP_246383.1. NC_007109.1.

    Genome annotation databases

    EnsemblBacteriaiAAY61218; AAY61218; RF_0367.
    GeneIDi3400360.
    KEGGirfe:RF_0367.
    PATRICi17891190. VBIRicFel64634_0429.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000053 Genomic DNA. Translation: AAY61218.1 .
    RefSeqi WP_011270706.1. NC_007109.1.
    YP_246383.1. NC_007109.1.

    3D structure databases

    ProteinModelPortali Q4UMJ0.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 315456.RF_0367.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAY61218 ; AAY61218 ; RF_0367 .
    GeneIDi 3400360.
    KEGGi rfe:RF_0367.
    PATRICi 17891190. VBIRicFel64634_0429.

    Phylogenomic databases

    eggNOGi COG1197.
    HOGENOMi HOG000216592.
    KOi K03723.
    OMAi QVLEHGE.
    OrthoDBi EOG6FNHKW.

    Enzyme and pathway databases

    BioCyci RFEL315456:GKEK-380-MONOMER.

    Family and domain databases

    Gene3Di 3.40.50.300. 2 hits.
    HAMAPi MF_00969. TRCF.
    InterProi IPR003711. CarD-like/TRCF_domain.
    IPR011545. DNA/RNA_helicase_DEAD/DEAH_N.
    IPR014001. Helicase_ATP-bd.
    IPR001650. Helicase_C.
    IPR004576. Mfd.
    IPR027417. P-loop_NTPase.
    IPR005118. TRCF_C.
    [Graphical view ]
    Pfami PF02559. CarD_CdnL_TRCF. 1 hit.
    PF00270. DEAD. 1 hit.
    PF00271. Helicase_C. 1 hit.
    PF03461. TRCF. 1 hit.
    [Graphical view ]
    SMARTi SM01058. CarD_TRCF. 1 hit.
    SM00487. DEXDc. 1 hit.
    SM00490. HELICc. 1 hit.
    SM00982. TRCF. 1 hit.
    [Graphical view ]
    SUPFAMi SSF141259. SSF141259. 1 hit.
    SSF52540. SSF52540. 3 hits.
    TIGRFAMsi TIGR00580. mfd. 1 hit.
    PROSITEi PS51192. HELICASE_ATP_BIND_1. 1 hit.
    PS51194. HELICASE_CTER. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "The genome sequence of Rickettsia felis identifies the first putative conjugative plasmid in an obligate intracellular parasite."
      Ogata H., Renesto P., Audic S., Robert C., Blanc G., Fournier P.-E., Parinello H., Claverie J.-M., Raoult D.
      PLoS Biol. 3:1-12(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC VR-1525 / URRWXCal2.

    Entry informationi

    Entry nameiMFD_RICFE
    AccessioniPrimary (citable) accession number: Q4UMJ0
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 20, 2007
    Last sequence update: July 5, 2005
    Last modified: October 1, 2014
    This is version 73 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome

    Documents

    1. Rickettsia felis (Rickettsia azadi)
      Rickettsia felis (strain URRWXCal2): entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3