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MFD_STAAM
ID   MFD_STAAM               Reviewed;        1168 AA.
AC   Q99WA0;
DT   03-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT   01-JUN-2001, sequence version 1.
DT   03-AUG-2022, entry version 138.
DE   RecName: Full=Transcription-repair-coupling factor {ECO:0000255|HAMAP-Rule:MF_00969};
DE            Short=TRCF {ECO:0000255|HAMAP-Rule:MF_00969};
DE            EC=3.6.4.- {ECO:0000255|HAMAP-Rule:MF_00969};
GN   Name=mfd {ECO:0000255|HAMAP-Rule:MF_00969}; OrderedLocusNames=SAV0503;
OS   Staphylococcus aureus (strain Mu50 / ATCC 700699).
OC   Bacteria; Firmicutes; Bacilli; Bacillales; Staphylococcaceae;
OC   Staphylococcus.
OX   NCBI_TaxID=158878;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=Mu50 / ATCC 700699;
RX   PubMed=11418146; DOI=10.1016/s0140-6736(00)04403-2;
RA   Kuroda M., Ohta T., Uchiyama I., Baba T., Yuzawa H., Kobayashi I., Cui L.,
RA   Oguchi A., Aoki K., Nagai Y., Lian J.-Q., Ito T., Kanamori M.,
RA   Matsumaru H., Maruyama A., Murakami H., Hosoyama A., Mizutani-Ui Y.,
RA   Takahashi N.K., Sawano T., Inoue R., Kaito C., Sekimizu K., Hirakawa H.,
RA   Kuhara S., Goto S., Yabuzaki J., Kanehisa M., Yamashita A., Oshima K.,
RA   Furuya K., Yoshino C., Shiba T., Hattori M., Ogasawara N., Hayashi H.,
RA   Hiramatsu K.;
RT   "Whole genome sequencing of meticillin-resistant Staphylococcus aureus.";
RL   Lancet 357:1225-1240(2001).
CC   -!- FUNCTION: Couples transcription and DNA repair by recognizing RNA
CC       polymerase (RNAP) stalled at DNA lesions. Mediates ATP-dependent
CC       release of RNAP and its truncated transcript from the DNA, and
CC       recruitment of nucleotide excision repair machinery to the damaged
CC       site. {ECO:0000255|HAMAP-Rule:MF_00969}.
CC   -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_00969}.
CC   -!- SIMILARITY: In the N-terminal section; belongs to the UvrB family.
CC       {ECO:0000255|HAMAP-Rule:MF_00969}.
CC   -!- SIMILARITY: In the C-terminal section; belongs to the helicase family.
CC       RecG subfamily. {ECO:0000255|HAMAP-Rule:MF_00969}.
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DR   EMBL; BA000017; BAB56665.1; -; Genomic_DNA.
DR   RefSeq; WP_000154218.1; NC_002758.2.
DR   AlphaFoldDB; Q99WA0; -.
DR   SMR; Q99WA0; -.
DR   World-2DPAGE; 0002:Q99WA0; -.
DR   PaxDb; Q99WA0; -.
DR   EnsemblBacteria; BAB56665; BAB56665; SAV0503.
DR   KEGG; sav:SAV0503; -.
DR   HOGENOM; CLU_005122_1_3_9; -.
DR   OMA; WAPPCRE; -.
DR   PhylomeDB; Q99WA0; -.
DR   BioCyc; SAUR158878:SAV_RS02765-MON; -.
DR   Proteomes; UP000002481; Chromosome.
DR   GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR   GO; GO:0005524; F:ATP binding; IEA:UniProtKB-UniRule.
DR   GO; GO:0003684; F:damaged DNA binding; IEA:InterPro.
DR   GO; GO:0004386; F:helicase activity; IEA:UniProtKB-KW.
DR   GO; GO:0016787; F:hydrolase activity; IEA:UniProtKB-KW.
DR   GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:UniProtKB-UniRule.
DR   GO; GO:0000716; P:transcription-coupled nucleotide-excision repair, DNA damage recognition; IEA:UniProtKB-UniRule.
DR   Gene3D; 3.40.50.300; -; 2.
DR   Gene3D; 3.90.1150.50; -; 1.
DR   HAMAP; MF_00969; TRCF; 1.
DR   InterPro; IPR036101; CarD-like/TRCF_dom_sf.
DR   InterPro; IPR003711; CarD-like/TRCF_domain.
DR   InterPro; IPR011545; DEAD/DEAH_box_helicase_dom.
DR   InterPro; IPR014001; Helicase_ATP-bd.
DR   InterPro; IPR001650; Helicase_C.
DR   InterPro; IPR004576; Mfd.
DR   InterPro; IPR027417; P-loop_NTPase.
DR   InterPro; IPR037235; TRCF-like_C_D7.
DR   InterPro; IPR005118; TRCF_C.
DR   InterPro; IPR041471; UvrB_inter.
DR   Pfam; PF02559; CarD_CdnL_TRCF; 1.
DR   Pfam; PF00270; DEAD; 1.
DR   Pfam; PF00271; Helicase_C; 1.
DR   Pfam; PF03461; TRCF; 1.
DR   Pfam; PF17757; UvrB_inter; 1.
DR   SMART; SM01058; CarD_TRCF; 1.
DR   SMART; SM00487; DEXDc; 1.
DR   SMART; SM00490; HELICc; 1.
DR   SMART; SM00982; TRCF; 1.
DR   SUPFAM; SSF141259; SSF141259; 1.
DR   SUPFAM; SSF143517; SSF143517; 1.
DR   SUPFAM; SSF52540; SSF52540; 4.
DR   TIGRFAMs; TIGR00580; mfd; 1.
DR   PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
DR   PROSITE; PS51194; HELICASE_CTER; 1.
PE   3: Inferred from homology;
KW   ATP-binding; Cytoplasm; DNA damage; DNA repair; DNA-binding; Helicase;
KW   Hydrolase; Nucleotide-binding.
FT   CHAIN           1..1168
FT                   /note="Transcription-repair-coupling factor"
FT                   /id="PRO_0000282671"
FT   DOMAIN          633..794
FT                   /note="Helicase ATP-binding"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
FT   DOMAIN          808..969
FT                   /note="Helicase C-terminal"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
FT   MOTIF           747..750
FT                   /note="DEEQ box"
FT   BINDING         646..653
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
SQ   SEQUENCE   1168 AA;  134302 MW;  2D3C335253F4F236 CRC64;
     MTILTTLIKE DNHFQDLNQV FGQANTLVTG LSPSAKVTMI AEKYAQSNQQ LLLITNNLYQ
     ADKLETDLLQ FIDAEELYKY PVQDIMTEEF STQSPQLMSE RIRTLTALAQ GKKGLFIVPL
     NGLKKWLTPV EMWQNHQMTL RVGEDIDVDQ FLNKLVNMGY KRESVVSHIG EFSLRGGIID
     IFPLIGEPIR IELFDTEIDS IRDFDVETQR SKDNIEEVDI TTASDYIITE EVIRHLKEEL
     KTAYENTRPK IDKSVRNDLK ETYESFKLFE STYFDHQILR RLVAFMYETP STIIEYFQKD
     AIIAVDEFNR IKETEESLTV ESDSFISNII ESGNGFIGQS FIKYDDFETL IEGYPVTYFS
     LFATTMPIKL NHIIKFSCKP VQQFYGQYDI MRSEFQRYVN QNYHIVVLVE TETKVERMQA
     MLSEMHIPSI TKLHRSMSSG QAVIIEGSLS EGFELPDMGL VVITERELFK SKQKKQRKRT
     KAISNAEKIK SYQDLNVGDY IVHVHHGVGR YLGVETLEVG QTHRDYIKLQ YKGTDQLFVP
     VDQMDQVQKY VASEDKTPKL NKLGGSEWKK TKAKVQQSVE DIAEELIDLY KEREMAEGYQ
     YGEDTAEQTT FELDFPYELT PDQAKSIDEI KDDMQKSRPM DRLLCGDVGY GKTEVAVRAA
     FKAVMEGKQV AFLVPTTILA QQHYETLIER MQDFPVEIQL MSRFRTPKEI KQTKEGLKTG
     FVDIVVGTHK LLSKDIQYKD LGLLIVDEEQ RFGVRHKERI KTLKHNVDVL TLTATPIPRT
     LHMSMLGVRD LSVIETPPEN RFPVQTYVLE QNMSFIKEAL ERELSRDGQV FYLYNKVQSI
     YEKREQLQML MPDANIAVAH GQMTERDLEE TMLSFINNEY DILVTTTIIE TGVDVPNANT
     LIIEDADRFG LSQLYQLRGR VGRSSRIGYA YFLHPANKVL TETAEDRLQA IKEFTELGSG
     FKIAMRDLNI RGAGNLLGKQ QHGFIDTVGF DLYSQMLEEA VNEKRGIKEP ESEVPEVEVD
     LNLDAYLPTE YIANEQAKIE IYKKLRKTET FDQIIDIKDE LIDRFNDYPV EVARLLDIVE
     IKVHALHSGI TLIKDKGKII DIHLSVKATE NIDGEVLFKA TQPLGRTMKV GVQNNAMTIT
     LTKQNQWLDS LKFLVKCIEE SMRISDEA
 
 
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