ID U1LKN1_9BACL Unreviewed; 1174 AA.
AC U1LKN1;
DT 13-NOV-2013, integrated into UniProtKB/TrEMBL.
DT 13-NOV-2013, sequence version 1.
DT 24-JAN-2024, entry version 44.
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=M467_12580 {ECO:0000313|EMBL:ERG68103.1};
OS Exiguobacterium chiriqhucha RW-2.
OC Bacteria; Bacillota; Bacilli; Bacillales;
OC Bacillales Family XII. Incertae Sedis; Exiguobacterium.
OX NCBI_TaxID=1345023 {ECO:0000313|EMBL:ERG68103.1, ECO:0000313|Proteomes:UP000016464};
RN [1] {ECO:0000313|EMBL:ERG68103.1, ECO:0000313|Proteomes:UP000016464}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=RW-2 {ECO:0000313|EMBL:ERG68103.1,
RC ECO:0000313|Proteomes:UP000016464};
RX PubMed=23929485;
RA White R.A.III., Grassa C.J., Suttle C.A.;
RT "Draft Genome Sequence of Exiguobacterium pavilionensis Strain RW-2, with
RT Wide Thermal, Salinity, and pH Tolerance, Isolated from Modern Freshwater
RT Microbialites.";
RL Genome Announc. 1:e00597-e00513(2013).
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:ERG68103.1}.
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DR EMBL; ATCL01000010; ERG68103.1; -; Genomic_DNA.
DR RefSeq; WP_021065744.1; NZ_ATCL01000010.1.
DR AlphaFoldDB; U1LKN1; -.
DR STRING; 1385984.GCA_000702565_00024; -.
DR PATRIC; fig|1345023.5.peg.585; -.
DR eggNOG; COG1197; Bacteria.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000016464; 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}; Reference proteome {ECO:0000313|Proteomes:UP000016464}.
FT DOMAIN 634..795
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 816..970
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1174 AA; 131761 MW; 5E543E99F9783573 CRC64;
MNALEKFMVT LPETNVIRER LPKVDRQLVT GLTTSAKALV LAGLAKNSPR RLVVVTHNMY
QAQKMYDQLE SLIGPSKTLL YPIDETLAGE LSLTSSPELL AARIEARTRL LDETGGVLVV
PLGGLRRYIP NPSDWQTSHH HIKPGQELDL KPFAETLITL GYERTATVTA PGEFSVRGSI
LDVYPLTAAR PYRIDLFDTE VDSIFTFDAE TQRSLGVVGE AVIPPATEFI ASRDQLQQAG
QALERQYERT LSLIETETIR QALEDGIARD IEQFGRGEVP EKVGKYTPLL YSSTLLDYVG
AEAVLMLDEV ARIEDAADVQ DREEAEWFSS LIERGESVSN YTLAVPMHKV FRTLKQVAFS
LLPSRRSGIP ETNTVHLSCR PLPAFHGQMH LLKQEVERWQ QGDHRIVFLA GDQTRADKVV
ELLDDYGISS TFTNVDGELL PRHVHVMIGQ IEGGFELSTS RLVVVSEEEL FKRVTKRKRQ
TKNLTNAERI KSYQELKPND HVVHIHHGIG KYLGIKTIEV GGIHQDYLHL VYAGDDALYV
PVDQIDLVQK YVGAEGKEPK IYKLGGTEWK KVKSKVAKSV EDIADELIKL YAAREASVGY
AFPGDDEEMS QFESSFPYAE TEDQVRSIAE IKADMERSRP MDRLLCGDVG YGKTEVAIRA
AFKAVLAGKQ VAFLVPTTVL AQQHYETMLE RFSEFPINVS VMSRFRSKSE MAATKKGLKE
GTIDVVVGTH RVLSKDVTFA DLGLVIIDEE QRFGVKHKER LKQLKTNIDV LTLTATPIPR
TLHMSMIGIR DLSVLETPPE NRYPVQTYVM EYDGIVLREA LERELARGGQ AFFLYNRVEG
IERKAEEIRA LLPEARIATA HGRMTETELE SQLISFLEGE ADVLVSTTII ETGIDIPNVN
TLIVHDADKM GLSQLYQLRG RVGRSNRIAY AYFTYRKDKR LTEVAESRLQ AIKEFTELGS
GFKIAMRDLS IRGAGNLLGA QQSGFIDSVG FDLYSQMLSE AIEERKDRMR GQAKQVVFKP
EIAFQADAYI PDDYLSDSEL KIEMYKRFKY VDTPEALFAL QDELIERFGE FPEPVALLIQ
LTRLRIYGEM AKVARIKQSP GRIEMVLSLE STTALDVPSF MEWTMPLGRK LGVGQDNGAL
KLSLSGRMPV VELLNDADTV LEELVKRLAH AVAK
//
