ID W6TP34_9SPHI Unreviewed; 1140 AA.
AC W6TP34;
DT 16-APR-2014, integrated into UniProtKB/TrEMBL.
DT 16-APR-2014, sequence version 1.
DT 24-JAN-2024, entry version 45.
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=N824_11320 {ECO:0000313|EMBL:ETZ19324.1};
OS Pedobacter sp. V48.
OC Bacteria; Bacteroidota; Sphingobacteriia; Sphingobacteriales;
OC Sphingobacteriaceae; Pedobacter.
OX NCBI_TaxID=509635 {ECO:0000313|EMBL:ETZ19324.1, ECO:0000313|Proteomes:UP000019145};
RN [1] {ECO:0000313|EMBL:ETZ19324.1, ECO:0000313|Proteomes:UP000019145}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=V48 {ECO:0000313|EMBL:ETZ19324.1,
RC ECO:0000313|Proteomes:UP000019145};
RX PubMed=24578271;
RA Bitzer A.S., Garbeva P., Silby M.W.;
RT "Draft Genome Sequence of Pedobacter sp. Strain V48, Isolated from a
RT Coastal Sand Dune in the Netherlands.";
RL Genome Announc. 2:e00094-e00014(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}.
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:ETZ19324.1}.
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DR EMBL; AWRU01000034; ETZ19324.1; -; Genomic_DNA.
DR AlphaFoldDB; W6TP34; -.
DR STRING; 509635.N824_11320; -.
DR PATRIC; fig|509635.5.peg.5720; -.
DR eggNOG; COG1197; Bacteria.
DR Proteomes; UP000019145; 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}.
FT DOMAIN 602..763
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 783..938
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1140 AA; 129973 MW; C64313C51216CDED CRC64;
MLSSFYLRLI NRDFVTSKAN HKSYICIVNI RDLINRYKTD ERIVALAKAL NAGKGNKLQL
KGLVGSADAT IATATYFLLH KPILFVLPDR EEASYFLADL ESILDKEVLL FPSSFRKAFE
FTQVDTANVL ARAEVLNELN HHSEYGKIVV TYPEALAEKV INRSLLEKNT LEISLGAKLG
IDFINEFLID YDFNRTDFVY EPGQFSIRGG IVDIFSFSHD LPYRIEFFGD EIESIRTFEI
ESQLSVEDVK TFTIIPNVQS KYLTESNISL LDYIEKDTQL WFRDVEFTLD IVKSGYKKAV
ELWKALPVKE KAENQDWIDP KFAFTDEKMI ADMLQDFLLV EFGKQFFYKT DQVFQFETKP
QPSFNKDFNL LIHNIKENEK QGIHNFIFSS STKQTERLYA ILDDIDKTAK FTPVNIPLRE
GFVDAQQHVA FYTDHQIFDR FYKYKLKRGY QRSQAITLKE LRDLKPGDFV THIDHGIGKY
AGLEKVEVNG KTQEMIRLVY ADNDLLYVNI NSLNRIAKYS GKDGTAPKMN KLGTEAWDKL
KKTTKKKVKD IARDLIKLYA LRKSQVGTAF DPDGYLETEL EASFIYEDTP DQEKATNDVK
KDMEAPHPMD RLVCGDVGFG KTEIAIRAAF KAVANGKQAA VLVPTTILAL QHFKTFSGRL
KGFPCNVDYI NRFKTNKQIK DTLAAVVDGK VDIIIGTHRL LSKDVKFKDL GIMIIDEEQK
FGVASKEKLK ALRVNVDTLT LTATPIPRTL HFSLMGARDL SIMSTPPPNR QAVNTELHVF
NDKLIQEAVQ FELDRGGQVF FIHNRVNDLP QLGGLIQRLV PKARIGIAHG QLDGDALEDV
MLDFINGEKD VLVATTIIEA GLDIPNANTI IINHAHMFGL SDLHQMRGRV GRSNKKAFCY
LLSPPLSTLT SEARKRLSAI EEFSDLGSGF NIAMRDLDIR GSGNLLGAEQ SGFIAEIGFE
MYHKILDEAI QELKADEFKG LFKDEPERPF VTFTQIDTDL ELYIPDDYVT NITERYNLYT
ELSKIENETQ LKAFELSLKD RFGPVPRPVK TMLNVLRLQW VAKKLAFEKI TFKKGTLRGY
FITDKQSSFF DSTMFNKILH FAQIHPRLCN LKEVKDSLRI AFDNLNTVDE AVEMLEMVVN
//
