ID A0A094J9S4_9GAMM Unreviewed; 1155 AA.
AC A0A094J9S4;
DT 26-NOV-2014, integrated into UniProtKB/TrEMBL.
DT 26-NOV-2014, sequence version 1.
DT 24-JAN-2024, entry version 40.
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=HR45_18925 {ECO:0000313|EMBL:KFZ35987.1};
OS Shewanella mangrovi.
OC Bacteria; Pseudomonadota; Gammaproteobacteria; Alteromonadales;
OC Shewanellaceae; Shewanella.
OX NCBI_TaxID=1515746 {ECO:0000313|EMBL:KFZ35987.1, ECO:0000313|Proteomes:UP000029264};
RN [1] {ECO:0000313|EMBL:KFZ35987.1, ECO:0000313|Proteomes:UP000029264}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=YQH10 {ECO:0000313|EMBL:KFZ35987.1,
RC ECO:0000313|Proteomes:UP000029264};
RA Liu Y., Zeng R.;
RT "Shewanella sp. YQH10.";
RL Submitted (JUN-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:KFZ35987.1}.
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DR EMBL; JPEO01000028; KFZ35987.1; -; Genomic_DNA.
DR RefSeq; WP_037445760.1; NZ_JPEO01000028.1.
DR AlphaFoldDB; A0A094J9S4; -.
DR STRING; 1515746.HR45_18925; -.
DR eggNOG; COG1197; Bacteria.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000029264; 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 CDD; cd18810; SF2_C_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:UP000029264}.
FT DOMAIN 619..780
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 789..955
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1155 AA; 129798 MW; 8745CEDBA193E468 CRC64;
MTVFSVLAPP SATQAGDVRF LNVPEGVARA LTLAELAKAH DGISLLITPD TPSAMTLEAE
LRYLLGDSLP VWLFPDRETL PFDSFSPHQD LISQRLETLS RLPTANKGLL IVPVSTLMVR
LPPKAFMSAN VMLLKKDDKY PLEQMRQYLV DAGYHNVGQV YEHGEFAIRG SIIDIYPMGS
NEPLRIELFD DEVESIRFFE ADSQLSKAPV NEIRMLPARE FPTDDAAIEG FRLRYRRYFE
VVVKEPESVY QQVSRHILPA GIENYLPFFF DETATLFDYL TPAVQLLTVG DLSSAADEHL
KQVQQRYEDR RVDPLRPLLA PQDLYLLNEQ LFSELKARPR VQLSSSEQKH QLTAALQPLP
DLSINHKLRQ PLATLEEYLV GASGRVLFSA ESEGRREALL ELLSKINVKP NRFANAADFF
NAKDAIGLIV SPLSQGCRLA DPDISIICET ELFGARISQQ RRRDKQRQVS QDALIRDLAE
LKVGQAIVHI EHGVALYQGL ETLDTGGMVA EYLKLEYAGG DKLYVPVSSL HLISRYTTGP
EEDPALNKLG NESWAKARKK AIERIRDVAA ELLDVYARRQ ARPGFACELD DTEYAQFAQS
FPFEETVDQE NAIEAVLGDM QSATAMDRLV CGDVGFGKTE VAMRAAFVAV NAGKQVVVLV
PTTLLAQQHF ENFKDRFADW PVRIEVMSRF RTAKEQSQVL DALAEGKVDI VIGTHKLLNS
EVKFEDLGLL IIDEEHRFGV RQKEKIKALR ANVDILTLTA TPIPRTLNMA MSGMRDLSII
ATPPAKRLAV KTFVREYDKN TIREAVQREI LRGGQVYYLH NNVESIERAA EELRELVPEA
RVVVAHGQMR ERELERVMSD FYHRRYNVLV CTTIIETGID VPSANTIVIE RADNFGLAQL
HQLRGRVGRS HHQAYAYLMT PHPKCMTSDA RKRLEAIDAL EDLGAGFMLA TQDLEIRGAG
ELLGEEQSGH ISKIGFSLYM EMLESAVKAL KQGKEPSLAQ MLNEQCEMEL RIPALLPEDY
VGDVNIRLSL YKRIANCHTE AALDELKVEL IDRFGMLPEP TKNLMEMTLL KHQATLLGIK
KLEMHSRGGS LEFNDDHVVD PGFIIGLLQS QPQIYRMDGP NKLKFAMAME SSKQRLDSAQ
LLLTQLAQHR VGDQA
//
