ID A0A097EC63_9SPHN Unreviewed; 1160 AA.
AC A0A097EC63;
DT 07-JAN-2015, integrated into UniProtKB/TrEMBL.
DT 07-JAN-2015, 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=MC45_00520 {ECO:0000313|EMBL:AIT05164.1};
OS Sphingomonas taxi.
OC Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales;
OC Sphingomonadaceae; Sphingomonas.
OX NCBI_TaxID=1549858 {ECO:0000313|EMBL:AIT05164.1, ECO:0000313|Proteomes:UP000033200};
RN [1] {ECO:0000313|EMBL:AIT05164.1, ECO:0000313|Proteomes:UP000033200}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 55669 {ECO:0000313|EMBL:AIT05164.1,
RC ECO:0000313|Proteomes:UP000033200};
RA Zhou Y., Ma T., Liu T.;
RT "Using Illumina technology Improving SMRT sequencing Genome Assembly by
RT RASTools.";
RL Submitted (SEP-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}.
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DR EMBL; CP009571; AIT05164.1; -; Genomic_DNA.
DR RefSeq; WP_038658269.1; NZ_CP009571.1.
DR AlphaFoldDB; A0A097EC63; -.
DR STRING; 1549858.MC45_00520; -.
DR KEGG; stax:MC45_00520; -.
DR eggNOG; COG1197; Bacteria.
DR HOGENOM; CLU_005122_1_3_5; -.
DR Proteomes; UP000033200; 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; 3.40.50.11140; -; 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; IPR048635; MFD_D3.
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; PF21132; MFD_D3; 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:UP000033200}.
FT DOMAIN 630..791
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 812..966
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1160 AA; 126999 MW; EA855BABE3B67561 CRC64;
MPDLKTILSA KSPLTLAGVP AGFQPSLLAD LARAAAHSGK GGRAVFVAPD DAAMRAVAAT
AAFFAPELEV ISFPAWDCLP YDRASPTLRI MAERIAALWQ LQRPKKTPQL VLTTANAATQ
RVLTPFRIRQ LVATLEPGAR IDRDDLARLL QANGYVRTET VHDQGEYAVR GGILDLFPSG
EEQALRLDFF GDEIETVRTF SPEDQRTTGR IDGFTLLPAS EALLDEESIK RFRTRYRDKF
GATATGDPLY QAISDGRRLA GMEHWLPLFE EKLATLFDHL SADDVVVRDF GVTGAAEGRM
ESIADYYENR QRAEAAQPGS YRPLAAKTLY LDAKEWAASL DAARAHLTTP FHEPESATVL
DFDVDGPRDF GPERSASANV YEAVVDHLKG LRKAGKKPVL ASYSVGARER LGNLLKDHGL
HGGKAADSWQ EALGVADTGK SAGVALVVLP LDHGFTAPDV AVLTEQDMLG DRLVRRAKRK
KSADAFLAEI AALTPGDLVV HSDHGIGKYL GLTSIPVGKS PHDCVAVEYA GGDKLFVPVE
NLEVLSRYGS NEEGASLDRL GGEAWQRRKS KMKERIREIA GELIKTAAER ALHPGDVLEP
DVSGYPSFVD RFPYAETDDQ DRAIEDVLGD LSAGKPMDRL IVGDVGFGKT EIALRAAFVA
AMAGKQVAVV CPTTLLARQH YNNFSARFEG FPMNMGRLSR LVPAGEAKAV KEGLAGGTVD
VVIGTHALLA KNIDFKRLGL VIVDEEQRFG VTHKERLKAL RADVHMLTLT ATPIPRTLQM
AMSGIRELSV IQTPPVDRLA VRTYVIPWDP VVLREALLRE HYRGGQSFIV TPRVADLPDL
EEYLRNEVPE IRYVVAHGQM SPTEVEERMS AFYDKKFEVL VSTTIIESGI DIASANTIIV
NRADRFGLAQ LYQLRGRVGR SKTRAYAYLV TPPERQMTET AEKRLKVLSD LDSLGAGFQL
ASHDLDIRGA GNLLGDEQSG HIKEVGYELY QSMLEEAIMD AKAGGMALRP RDFSPQITVD
APILIPDDYV PDLDLRMGLY RRLNELEDNR EIEAFAAEMI DRFGPLPDAT DNLIRVIEIK
LNARKACIAK MDVGPRGVLV GFHDDTPPNV PGLLAYVERL NGVAKLRPDS KLVLQRAWPD
AKSRLHGALQ LSKGLAKAAG
//
