ID A0A1S2DBB6_9GAMM Unreviewed; 1149 AA.
AC A0A1S2DBB6;
DT 12-APR-2017, integrated into UniProtKB/TrEMBL.
DT 12-APR-2017, sequence version 1.
DT 24-JAN-2024, entry version 27.
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=BC443_17705 {ECO:0000313|EMBL:OHY97555.1};
OS Salinicola sp. MIT1003.
OC Bacteria; Pseudomonadota; Gammaproteobacteria; Oceanospirillales;
OC Halomonadaceae; Salinicola.
OX NCBI_TaxID=1882734 {ECO:0000313|EMBL:OHY97555.1, ECO:0000313|Proteomes:UP000179615};
RN [1] {ECO:0000313|EMBL:OHY97555.1, ECO:0000313|Proteomes:UP000179615}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=MIT1003 {ECO:0000313|EMBL:OHY97555.1,
RC ECO:0000313|Proteomes:UP000179615};
RA Biller S.;
RT "Membrane vesicles in seawater: heterogeneous DNA content and implications
RT for viral abundance estimates.";
RL Submitted (JUL-2016) 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:OHY97555.1}.
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DR EMBL; MCAP01000059; OHY97555.1; -; Genomic_DNA.
DR RefSeq; WP_071233106.1; NZ_MCAP01000059.1.
DR AlphaFoldDB; A0A1S2DBB6; -.
DR STRING; 1882734.BC443_17705; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000179615; 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:UP000179615}.
FT DOMAIN 615..776
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 789..951
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1149 AA; 127967 MW; 8A71329685C91CB2 CRC64;
MSHFTPLAPP LPTGTRETTY CQLPQGSATA LTLARLADDA PLLVVTPDTA SAQRLESTLR
FYADVPVMPF PDWETLPYDS FSPHQDIVSA RLRTLRELQE GTQGIVLASI NTLMQRLPPR
DYVAGRVLTL VTGDRLDRES FRERLSRAGY RAVETVYEPG EYAMRGSLID LFPMGTDAPL
RIDLFDDEID TLRRFDPDTQ RTQDKIERID LLPAHEYSLS RSAIACFREG FETLFDVDPR
QCPLYVDAIK GIPSPGLEQY LPLFFEETAT LFEHLAEQTR IALLPDVFEA AEHHWLSIEG
RYENLGVDPT RPLLPPAKAF VPAAEVFAAI KQHPRLEFVT DSASRHAIAS ATQSPPAVAI
NARAQHPLAT LEAFLDAHRD LRILFVAESR GRREALDEAL APLHRDIPHI DGWQNFLDGN
QPLAIAEGAL DEGLWLGDPA IAVITETELY GEVVRQTRRR AKATDDNELA VRHLSELRPG
APVVHQHHGV GRYLGLEMLT AGGQAAEFLA LEYAGGAKLY VPVDNLQLIS RYAGATDELA
PLHKLGSDTW DKAKRKAAEK VRDTAAELLD IYARREAREG FVSDMPGEEY LRFAASFPFE
ETPDQHAAIE AVIADMTAPR PMDRVVCGDV GFGKTEVAMR AAFLAVSSGR QVVVLVPTTL
LAQQHYDNFR DRFADTAAQI EMLSRFTGGK GEGDALKRIE EGRADIVIGT HKLLSKSVKF
SNLGLMIIDE EHRFGVAQKE RLKQMRAEVD ILTLTATPIP RTLNMAMNGI RDLSIIATPP
ARRLSVKTFV QQRNEPVVKE AILREVLRGG QVYFLHNEVK TIEASAEKIR ELVPEARVGV
AHGQLPERAL ERVMSDFYHK RFNVLVCSTI IETGIDVPSA NTIIIERADK FGLAQLHQLR
GRVGRSHHQA YAYLLTPPPK AMTKDAIKRL EAISQSDDLG AGFTLASHDM EIRGAGELLG
DEQSGQMETI GYSLYMQMLD RAVKAIRAGK TPNIEAPLDE GTEISLNLPA LIPNDYLPDV
QQRLIMYKRI SSAADEGALK ELQVEMIDRF GLLPAPLKTL FRQTRLRQRA ERLGIAKLEA
GAERGRVIFG PDPQVDPMTL VELIQRQPAE YKLDGADTLR FHGDMEKEED RFQRIDTLLD
ILNRKAKAA
//