ID U5RU12_9CLOT Unreviewed; 1173 AA.
AC U5RU12;
DT 22-JAN-2014, integrated into UniProtKB/TrEMBL.
DT 22-JAN-2014, sequence version 1.
DT 24-JAN-2024, entry version 53.
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:AGY76220.1};
GN ORFNames=CAETHG_2001 {ECO:0000313|EMBL:AGY76220.1};
OS Clostridium autoethanogenum DSM 10061.
OC Bacteria; Bacillota; Clostridia; Eubacteriales; Clostridiaceae;
OC Clostridium.
OX NCBI_TaxID=1341692 {ECO:0000313|EMBL:AGY76220.1, ECO:0000313|Proteomes:UP000017590};
RN [1] {ECO:0000313|EMBL:AGY76220.1, ECO:0000313|Proteomes:UP000017590}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=DSM 10061 {ECO:0000313|EMBL:AGY76220.1};
RX PubMed=24655715; DOI=10.1186/1754-6834-7-40;
RA Brown S.D., Nagaraju S., Utturkar S., De Tissera S., Segovia S.,
RA Mitchell W., Land M.L., Dassanayake A., Kopke M.;
RT "Comparison of single-molecule sequencing and hybrid approaches for
RT finishing the genome of Clostridium autoethanogenum and analysis of CRISPR
RT systems in industrial relevant Clostridia.";
RL Biotechnol. Biofuels 7:40-40(2014).
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}.
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DR EMBL; CP006763; AGY76220.1; -; Genomic_DNA.
DR RefSeq; WP_013240744.1; NZ_CP012395.1.
DR AlphaFoldDB; U5RU12; -.
DR KEGG; cah:CAETHG_2001; -.
DR PATRIC; fig|1341692.11.peg.2026; -.
DR HOGENOM; CLU_005122_1_3_9; -.
DR Proteomes; UP000017590; 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 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}; Coiled coil {ECO:0000256|SAM:Coils};
KW 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}.
FT DOMAIN 642..803
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 812..978
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
FT COILED 240..279
FT /evidence="ECO:0000256|SAM:Coils"
SQ SEQUENCE 1173 AA; 135099 MW; 84E4A34DF12AA6D3 CRC64;
MRLDGLIKPM RESREFRNII DGISKKKFPI GVFGLSESAK SYLIYGVYNE IDKPFLIVTH
SDVEARKLYE DLSLYLAEVY YFPTKEMVFY NIDAISGDLR WERLKVIRKM IDTGRKIIIT
CVESLASAYI PVGLYENYII NISVGEALNL KDISEKLVQS GYEKNEIVDS KGQFSIRGDI
MDVYSPIAAE AYRIELFGDE VESIRTLNLE SQRSIDKLDS IEIFPAKEII LDKDKIQKGR
KSIEDDAALV EKKLEKSKNK EALDRIDELT KKNLESLEEN WSFENIDSFL PYFYDKPASF
LDYAKDYFVV MDDVQRCSGK LDSVYFEFEE NYKNLLERGN ILPKQSKMLC AKSDLFEELK
NKEIMTLDAI AKSSKVIQPK TITNFSQITL NSYQGQIDLL IEDIKDKKSR GYKILILSGT
RPRGERLVDT LREKGIESSY RDVIHEIKSG EVVITFGSQL KGFEYPDFKL GVISDKEVFG
EAKKKNTRKV LKKGVSKIKS FTELKPGDFV VHVNHGIGIY KGIKQLEVQG HKKDYLELIY
DSEDKLYVPV EQLDMVQKYI GSEGKSPKVS KLGGSDWAKA KKKVKKSIEE IAEDLVKLYA
IRSTLKGYKY SKDTVWQKQF EDEFPYEETP DQLTTIQDIK QDMESDKVMD RLLCGDVGYG
KTEVAVRAAF KAVMDGKQVA FLVPTTILAQ QHYNNFVQRF SDFPVKIDMI SRFRTTAQQK
ASIKAVKVGD VDILIGTHRI LQKDVQFKDL GLLIIDEEQR FGVSHKEKIK KIRKNVDVLT
LSATPIPRTL HMSLVGARDI SVIETPPEER YPIQTYVVEY NDQLIRDAIL REINRGGQVY
FVYNRVESIK EMASYIAKLI PEAKVAVAHG QMQERELENI IVDFMKNEYN VLVATTIIET
GMDIQNVNTM IIYDADKMGL SQLYQLRGRV GRTNRMAYCY LSYRRDKVLT EVAEKRLKAI
KEFTELGSGF KIALKDLEIR GAGNMMGASQ HGHMAAVGYD LYCRMLEDTI KLIKGDIDKE
PVETTVELKI DAYIPDNYIK SEVQKIEIYK KIAAISSYDD MLDIKEELED RFSDIPTSVY
NLMDIAYIRS MSKKIGIEEI KEIKDEVVFS FQDQDRVDKN VLRELFKTYP HEFVLKMNKK
PGFGYKLKNV KREDILHQIK EIVKYMLKIY EQK
//