ID A5FKM8_FLAJ1 Unreviewed; 1121 AA.
AC A5FKM8;
DT 12-JUN-2007, integrated into UniProtKB/TrEMBL.
DT 12-JUN-2007, sequence version 1.
DT 27-MAR-2024, entry version 110.
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 OrderedLocusNames=Fjoh_1202 {ECO:0000313|EMBL:ABQ04234.1};
OS Flavobacterium johnsoniae (strain ATCC 17061 / DSM 2064 / JCM 8514 / NBRC
OS 14942 / NCIMB 11054 / UW101) (Cytophaga johnsonae).
OC Bacteria; Bacteroidota; Flavobacteriia; Flavobacteriales;
OC Flavobacteriaceae; Flavobacterium.
OX NCBI_TaxID=376686 {ECO:0000313|EMBL:ABQ04234.1, ECO:0000313|Proteomes:UP000006694};
RN [1] {ECO:0000313|EMBL:ABQ04234.1, ECO:0000313|Proteomes:UP000006694}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 17061 / DSM 2064 / JCM 8514 / NBRC 14942 / NCIMB 11054 /
RC UW101 {ECO:0000313|Proteomes:UP000006694};
RX PubMed=19717629; DOI=10.1128/AEM.01495-09;
RA McBride M.J., Xie G., Martens E.C., Lapidus A., Henrissat B., Rhodes R.G.,
RA Goltsman E., Wang W., Xu J., Hunnicutt D.W., Staroscik A.M., Hoover T.R.,
RA Cheng Y.Q., Stein J.L.;
RT "Novel features of the polysaccharide-digesting gliding bacterium
RT Flavobacterium johnsoniae as revealed by genome sequence analysis.";
RL Appl. Environ. Microbiol. 75:6864-6875(2009).
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; CP000685; ABQ04234.1; -; Genomic_DNA.
DR RefSeq; WP_012023284.1; NZ_MUGZ01000003.1.
DR AlphaFoldDB; A5FKM8; -.
DR STRING; 376686.Fjoh_1202; -.
DR KEGG; fjo:Fjoh_1202; -.
DR eggNOG; COG1197; Bacteria.
DR HOGENOM; CLU_005122_1_3_10; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000006694; 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; 3.40.50.300; 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; 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}.
FT DOMAIN 576..737
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 746..912
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1121 AA; 128390 MW; EE8A766D88062999 CRC64;
MSKNVLYTTY DNLPKAQQIA SGLLEGNQIK MNISGLLGSA VSFIIRSVFK KTELPFLIVL
DNKEEAAYYL NDLEQMIGEQ DVLFYPVSFR RPYQVDETDN ANVLLRAEVL NRINSRKKPA
VIVTYPEALF EKVVTRQQLD KNTLKVSLND KISIDFINEV LFEYEFKRVD FITEPGEFSV
RGGIVDVFSF SNDHPYRIEF FGNEVDSIRT FDVETQLSVE THKKITIIPN VENKIFQENR
ESFLDYIAEK TVLFIQNTEG LFSQLDKQFA RAEEAFEKLS KEIKHAAPEQ LFLNQASFIK
RALDFSVVEL ASRPVFKTTK KFEFHIQPQP SFNKQFDLLL NNLSDNHFNG YVNYLFCSNE
TQAKRFHDIF ESLDEANSEN IRKHYHTIVL PLYQGFIDEE NQITAYTDHQ IFERYHKFNI
KNGYSKKQNI TLKELTALSV GDYVTHIDHG IGKFGGLQKI QVEGKTQEAI KLVYADNDIV
YVSIHSLHKI SKYNGKDGTP PKIYKLGSNA WKVLKQKTKA RVKHIAFNLI QLYAKRRLEK
GFQFAPDSYL QNELESSFIY EDTPDQMKST QEVKADMESD RPMDRLVCGD VGFGKTEVAI
RAAFKAVDNS KQVAVLVPTT ILAYQHYRTF SERLKDMPVS IGYLNRFRTA KQKTQTLKDL
AEGKLDIVIG THQLVNKNVV FKDLGLLIVD EEQKFGVNVK DKLKTIAANV DTLTLTATPI
PRTLQFSLMA ARDLSVITTP PPNRYPIETN VVGFNEEIIR DAISYEIQRN GQVFFINNRI
ENIKEVAGMI QRLVPNARVG IGHGQMDGAK LEELMLGFMN GDFDVLVATT IIESGLDVPN
ANTIFINNAN NFGLSDLHQM RGRVGRSNKK AFCYFICPPY SSMTEDARKR IQALEQFSEL
GSGFNIAMKD LEIRGAGDLL GGEQSGFINE IGFDTYQKIM NEAIEELKEN EFKDLYPEEN
DIDTKEYVKD IQIDADFELL FPDEYINNVS ERLVLYNELG AIKDEAGLQE FERKLIDRFG
PLPKQATALL NSIRIKWIAT KVGIEKLVLK QGKMIGYFVS DQQSDYYQSV KFRNVLNFVQ
KHSSLCKMKE KQTVNGLRLL LTFENVKSIK RALELMELFE E
//
