ID A0A086BMX3_9FLAO Unreviewed; 1120 AA.
AC A0A086BMX3;
DT 29-OCT-2014, integrated into UniProtKB/TrEMBL.
DT 29-OCT-2014, sequence version 1.
DT 24-JAN-2024, entry version 42.
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 ORFNames=IQ37_00455 {ECO:0000313|EMBL:KFF30287.1};
OS Chryseobacterium piperi.
OC Bacteria; Bacteroidota; Flavobacteriia; Flavobacteriales; Weeksellaceae;
OC Chryseobacterium group; Chryseobacterium.
OX NCBI_TaxID=558152 {ECO:0000313|EMBL:KFF30287.1, ECO:0000313|Proteomes:UP000028709};
RN [1] {ECO:0000313|EMBL:KFF30287.1, ECO:0000313|Proteomes:UP000028709}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=CTM {ECO:0000313|EMBL:KFF30287.1,
RC ECO:0000313|Proteomes:UP000028709};
RA Pipes S.E., Stropko S.J., Newman J.D.;
RT "Genome of Chryseobacterium piperi CTM.";
RL Submitted (JUL-2014) 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:KFF30287.1}.
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DR EMBL; JPRJ01000001; KFF30287.1; -; Genomic_DNA.
DR RefSeq; WP_034680497.1; NZ_JPRJ01000001.1.
DR AlphaFoldDB; A0A086BMX3; -.
DR STRING; 558152.IQ37_00455; -.
DR KEGG; cpip:CJF12_12860; -.
DR eggNOG; COG1197; Bacteria.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000028709; 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; 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:UP000028709}.
FT DOMAIN 572..733
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 742..908
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1120 AA; 127942 MW; 3572BA36ACA1E340 CRC64;
MQLKAINEKF LPDLLQKEFG KEIFTQLEAH QHISVKGNAG SSSSVFVAEL FLTQKKNILY
LIDDKEEALY ANTEIEDLLG KDKVLFFPAT HLEPYQVEKT QNANLVLRTE VLNKLNSSKS
PKVIVAYAGA LSEKVLKKED FKAISHHIKV GDQLDFDFVD ELLSHYQFQQ ADFVSEPGEF
SVRGGIVDVF SYSYEKPYRI TFFGNEVESI KTFDIETQLS IDKIKEFQLV SNMNFSVSAS
RVSLLQLLPK ESFVVSKNAV VGLQKIKSFY EKALEKYETL SKDIAHRTPQ ELFISDQEFL
FDYKKFKTID FSSVGIEELE TFNITIEQTA QPSFHKNFEL LIQDLEEKQS EGFDTWISFS
TEKQKERLES IFEELEHEAF FKSFKSELHE GFVDYNHKLL VYTDHQIFDR YQRYKAKNTF
AKSEQLTLKD LMSLKVGDYI AHIDHGIGKF MGLVKVNNDG KIQECFKLTY KNGDLLYVSI
HSLHKISKYN GPDGKEIVLS KLGSPAWKSL KQKTKAKVKQ IAFDLIKLYA QRKTAQGFAF
TPDSYLQNEL EASFIYEDTP DQEKATIDVK KDMESSTVMD RLVCGDVGFG KTEVAIRAAF
KAATDGKQVA VLVPTTILAF QHYRSFKERL KDFPVNVSYV NRFRTAKQKS EALEGLKNGK
VDIIIGTHQL ASASVKFKDL GLLIIDEEHK FGVSVKDKLK TLKSNVDTLT LTATPIPRTL
QFSLMAARDL SVIKTPPPNR QPVDTQIVGF NEEIIRDAVS YELQRDGQVY FINNRIENLK
DIAGLIQRLV PDARVITGHG QMEGKQLEKN VLDFMEGKYD VLVSTTIVES GVDVPNANTI
FINDAQRFGM ADLHQMRGRV GRSNRKAFCY LITPPYDMMT SDARKRLEAI EQFSDLGSGF
QIAMKDLEIR GAGDLLGAEQ SGFINEMGFE TYQKLMQEAL EELKDDEDFE NLFDNEEDRQ
KLFKSVKDVN IDTDLELMLP DFYISNTEER LSLYQKIAEI DNEKDLQKFE NELIDRFGDL
PKEAVNLLKS VSLKWLAADI GFEKIVMKNG VFLGYFPSNP QDKFYQTDKF KHIISYLTQN
PSEAQLKEKI GKEGNNLMMR KDKVKNVDEV NLLLKSILAL
//
