ID A0A2N3HL27_9FLAO Unreviewed; 1135 AA.
AC A0A2N3HL27;
DT 25-APR-2018, integrated into UniProtKB/TrEMBL.
DT 25-APR-2018, sequence version 1.
DT 24-JAN-2024, entry version 22.
DE RecName: Full=Transcription-repair-coupling factor {ECO:0000256|HAMAP-Rule:MF_00969};
DE Short=TRCF {ECO:0000256|HAMAP-Rule:MF_00969};
DE EC=3.6.4.- {ECO:0000256|HAMAP-Rule:MF_00969};
GN Name=mfd {ECO:0000256|HAMAP-Rule:MF_00969,
GN ECO:0000313|EMBL:PKQ45643.1};
GN ORFNames=CSW08_06125 {ECO:0000313|EMBL:PKQ45643.1};
OS Confluentibacter flavum.
OC Bacteria; Bacteroidota; Flavobacteriia; Flavobacteriales;
OC Flavobacteriaceae; Confluentibacter.
OX NCBI_TaxID=1909700 {ECO:0000313|EMBL:PKQ45643.1, ECO:0000313|Proteomes:UP000233435};
RN [1] {ECO:0000313|EMBL:PKQ45643.1, ECO:0000313|Proteomes:UP000233435}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=3B {ECO:0000313|EMBL:PKQ45643.1,
RC ECO:0000313|Proteomes:UP000233435};
RA Yu L.;
RT "Confluentibacter flavum sp. nov., isolated from the saline lake.";
RL Submitted (DEC-2017) to the EMBL/GenBank/DDBJ databases.
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:0000256|HAMAP-Rule:MF_00969}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000256|HAMAP-Rule:MF_00969}.
CC -!- SIMILARITY: In the C-terminal section; belongs to the helicase family.
CC RecG subfamily. {ECO:0000256|HAMAP-Rule:MF_00969}.
CC -!- SIMILARITY: In the N-terminal section; belongs to the UvrB family.
CC {ECO:0000256|HAMAP-Rule:MF_00969}.
CC -!- CAUTION: The sequence shown here is derived from an EMBL/GenBank/DDBJ
CC whole genome shotgun (WGS) entry which is preliminary data.
CC {ECO:0000313|EMBL:PKQ45643.1}.
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DR EMBL; PJEO01000017; PKQ45643.1; -; Genomic_DNA.
DR AlphaFoldDB; A0A2N3HL27; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000233435; Unassembled WGS sequence.
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 DNA-templated transcription; IEA:UniProtKB-UniRule.
DR GO; GO:0000716; P:transcription-coupled nucleotide-excision repair, DNA damage recognition; IEA:UniProtKB-UniRule.
DR CDD; cd17991; DEXHc_TRCF; 1.
DR Gene3D; 2.40.10.170; -; 1.
DR Gene3D; 3.40.50.11180; -; 1.
DR Gene3D; 3.40.50.300; P-loop containing nucleotide triphosphate hydrolases; 2.
DR Gene3D; 3.30.2060.10; Penicillin-binding protein 1b domain; 1.
DR Gene3D; 3.90.1150.50; Transcription-repair-coupling factor, D7 domain; 1.
DR HAMAP; MF_00969; TRCF; 1.
DR InterPro; IPR003711; CarD-like/TRCF_RID.
DR InterPro; IPR036101; CarD-like/TRCF_RID_sf.
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; IPR047112; RecG/Mfd.
DR InterPro; IPR037235; TRCF-like_C_D7.
DR InterPro; IPR005118; TRCF_C.
DR InterPro; IPR041471; UvrB_inter.
DR NCBIfam; TIGR00580; mfd; 1.
DR PANTHER; PTHR47964; ATP-DEPENDENT DNA HELICASE HOMOLOG RECG, CHLOROPLASTIC; 1.
DR PANTHER; PTHR47964:SF1; ATP-DEPENDENT DNA HELICASE HOMOLOG RECG, CHLOROPLASTIC; 1.
DR Pfam; PF02559; CarD_TRCF_RID; 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; CarD-like; 1.
DR SUPFAM; SSF52540; P-loop containing nucleoside triphosphate hydrolases; 4.
DR SUPFAM; SSF143517; TRCF domain-like; 1.
DR PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
DR PROSITE; PS51194; HELICASE_CTER; 1.
PE 3: Inferred from homology;
KW ATP-binding {ECO:0000256|ARBA:ARBA00022840, ECO:0000256|HAMAP-
KW Rule:MF_00969}; Cytoplasm {ECO:0000256|HAMAP-Rule:MF_00969};
KW DNA damage {ECO:0000256|ARBA:ARBA00022763, ECO:0000256|HAMAP-
KW Rule:MF_00969};
KW DNA repair {ECO:0000256|ARBA:ARBA00023204, ECO:0000256|HAMAP-
KW Rule:MF_00969};
KW DNA-binding {ECO:0000256|ARBA:ARBA00023125, ECO:0000256|HAMAP-
KW Rule:MF_00969}; Helicase {ECO:0000256|ARBA:ARBA00022806};
KW Hydrolase {ECO:0000256|ARBA:ARBA00022801, ECO:0000256|HAMAP-Rule:MF_00969};
KW Nucleotide-binding {ECO:0000256|ARBA:ARBA00022741, ECO:0000256|HAMAP-
KW Rule:MF_00969}; Reference proteome {ECO:0000313|Proteomes:UP000233435}.
FT DOMAIN 592..753
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 762..928
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1135 AA; 130149 MW; 56B2C4CEA673B441 CRC64;
MSKTNLSQTY SQILQVQNLQ KAIAQNKSRT HLKGLVGSSF SFVLSSVFKD ADKPFLLVFN
DKEEAAFYLN DLERLINTKD VLFYPGSYRR PYQIEETDNA NVLLRAEVLN RINSQKKPAI
IVTYPDALFE KVVTRKELER NTLKISVGDN LSIDFVNEVL FEYQFKRVDF VTEPGEFSVR
GGIVDVFSFS NDEPYRIEFF GDEVDSIRTF DVETQLSIEQ IKKINIIPNV ENKFLNEERA
SFLKYIASKT VLCFKNMDLF FSRIDDFYGK AEDAFKTLST EIKHAKPEEL FCNSALLKRQ
LLDFSIIEFG SSSVFNNVIA SATKQSASID EMASSQTPRH DEIIFNTSPQ PSFNKQFNLL
IEDLNTNYDK GFTNYIACVS EQQAKRFHDI FDDSHLEVKP YKTITLSLHQ GFVDYDNNIV
CYTDHQIFER YHKFHVKNGY AKKQSITLKE LTNLDIGDYV THIDHGIGRF GGLQKIDVEG
KQQEAIKLVY GERDVLYLSI HSLHKITKFN GKDGKPPKIY KLGSNAWKTL KEKTKSRVKH
IAFNLIQLYA KRKTEKGYQY HPDSYMQLEL ESSFLYEDTP DQITATADIK SDMESERPMD
RLVCGDVGFG KTEVAIRAAF KAVDNGKQVA VLVPTTILAY QHSRTFSERL KDFPVTVDYL
NRFRTTKERR DTLEKLENGK VDIIIGTHQL VNKDVKFKDL GLLIVDEEQK FGVAVKEKLK
TLKENVDVLT LTATPIPRTL QFSLMAARDL SVITTPPPNR YPIESHVIRF NEETIRDAVS
YEIQRGGQIF FIHNRIENIK EVAGMIQRLV PDAKIGIGHG QLDGKKLEQL MLAFMEGAFD
VLVSTTIVES GLDVPNANTI FINNANNFGL SDLHQMRGRV GRSNKKAFCY FITPEYSAMT
DDARKRITAL EQFTELGSGF NIAMKDLEIR GAGDLLGGEQ SGFINEIGFE TYQKILNEAI
EELKENEFKD LYKEDIDNKI YVKEVTIDSD FELLFPDNYV NNIAERLNLY TQLNDLKTEE
ELQKFETHLI DRFGELPTQV LDLMNSVRIK WIATKAGFEK IIMKQGKFIG YFINDQQSSF
YQSNNFTKVL QYVQANPKIC QMKEKQTRNG LRLLLTFENI KTVKQALTVL EPIVA
//
