ID A0A2U1JN56_9FLAO Unreviewed; 1119 AA.
AC A0A2U1JN56;
DT 18-JUL-2018, integrated into UniProtKB/TrEMBL.
DT 18-JUL-2018, sequence version 1.
DT 24-JAN-2024, entry version 23.
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:PWA06562.1};
GN ORFNames=DB895_03870 {ECO:0000313|EMBL:PWA06562.1};
OS Flavobacterium psychrotolerans.
OC Bacteria; Bacteroidota; Flavobacteriia; Flavobacteriales;
OC Flavobacteriaceae; Flavobacterium.
OX NCBI_TaxID=2169410 {ECO:0000313|EMBL:PWA06562.1, ECO:0000313|Proteomes:UP000245449};
RN [1] {ECO:0000313|EMBL:PWA06562.1, ECO:0000313|Proteomes:UP000245449}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=RB1R5 {ECO:0000313|EMBL:PWA06562.1,
RC ECO:0000313|Proteomes:UP000245449};
RA Liu Q., Xin Y.-H.;
RT "Flavobacterium sp. nov., isolated from glacier ice.";
RL Submitted (APR-2018) 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:PWA06562.1}.
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DR EMBL; QCZI01000003; PWA06562.1; -; Genomic_DNA.
DR AlphaFoldDB; A0A2U1JN56; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000245449; 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; 3.40.50.300; P-loop containing nucleotide triphosphate hydrolases; 3.
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; 3.
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:UP000245449}.
FT DOMAIN 575..736
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 745..911
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1119 AA; 128350 MW; A602E0070AB17373 CRC64;
MSKANLLNTY ANSPKVKQII DCLQTPEQKI HLNGLIGSSL SFVIQSLFTK TEKPFLVLLN
DKEEAAYYLN DLEQLIGEQD VLFYPGSYRR PYQIEDTDNA NVLLRAEVLN RINSRKKPAV
IVSYPEALFE KVVTKKELDK NTLKVAVGDK ISIEFINEVL FEYEFKRVDF ITEPGEFSVR
GGIIDVFSFS NDNPYRIEFF GNEVDSIRSF DVETQLSIEK QNKITIIPNV ENKFFQENRE
SFLEYISNKT ILCIQNTELL LSKLDKLFGK ADEIFKNLNA TVSHVEPGQL FVNQTEFVKK
SLDFSILELS SKPIYRIQKT FEFHIQPQPS FNKQFDLLLN NLNDNHFNGY KNYLFCSNDA
QAKRFHDIFE TLDEANHESI RKQYNTITLP LYQGFIDEEN QIACYTDHQI FERYHKFSIK
NNYSKKQTIT LKELTTLSVG DYVTHIDHGI GRFGGLQKIQ VEGKTQEAIK LVYADNDIVY
VSIHSLYKIS KYNGKDGTPP KIYKLGSNAW KVLKQKTKAR VKHIAFNLIQ LYAKRRLEKG
FRYAPDSYLQ AELESSFIYE DTPDQTKSTA EVKSDMESDR PMDRLVCGDV GFGKTEVAIR
AAFKAVDNGK QVAVLVPTTI LAYQHFRTFT ERLKEMPVSV GYLNRFRTAK QKAETLKQLA
EGKLDIVIGT HQLVNKNVVF KDLGLLIVDE EQKFGVNVKD KLKTIAANVD TLTLTATPIP
RTLQFSLMAA RDLSVITTPP PNRYPIETNV VGFSEELIRD AISYEIQRNG QVFFINNRIE
NIKEVAGMIQ RLVPDARVGI GHGQMEGSKL EELMLAFMNG EFDVLVATTI IESGLDVPNA
NTIFINNANN FGLSDLHQMR GRVGRSNKKA FCYFICPPYS AMTDDARKRI QALEQFSELG
SGFNIAMKDL EIRGAGDLLG GEQSGFINEI GFDTYQKIMN EAIEELKENE FKELYADEEK
PEKEYVKDLQ IDTDFELLFP DEYINNITER LNLYNELSLI KDEETLLAYE TKLIDRFGLL
PKQAISLLNS IKIKWIATKL GVEKLVMKQG KMIYYFVSDQ QSNYYTSPQF HKVLQFVQKQ
PQLCKMKEKQ TPNGLRLLLT FEHVKSIRKA LELMELMQG
//
