ID A0A1I5RYA8_9SPHN Unreviewed; 1153 AA.
AC A0A1I5RYA8;
DT 22-NOV-2017, integrated into UniProtKB/TrEMBL.
DT 22-NOV-2017, sequence version 1.
DT 24-JAN-2024, entry version 22.
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=SAMN04488241_104187 {ECO:0000313|EMBL:SFP62986.1};
OS Sphingomonas rubra.
OC Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales;
OC Sphingomonadaceae; Sphingomonas.
OX NCBI_TaxID=634430 {ECO:0000313|EMBL:SFP62986.1, ECO:0000313|Proteomes:UP000199586};
RN [1] {ECO:0000313|EMBL:SFP62986.1, ECO:0000313|Proteomes:UP000199586}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=CGMCC 1.9113 {ECO:0000313|EMBL:SFP62986.1,
RC ECO:0000313|Proteomes:UP000199586};
RA de Groot N.N.;
RL Submitted (OCT-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}.
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DR EMBL; FOXP01000004; SFP62986.1; -; Genomic_DNA.
DR AlphaFoldDB; A0A1I5RYA8; -.
DR STRING; 634430.SAMN04488241_104187; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000199586; 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; 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};
KW Helicase {ECO:0000256|ARBA:ARBA00022806, ECO:0000313|EMBL:SFP62986.1};
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:UP000199586}.
FT DOMAIN 623..784
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 805..959
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1153 AA; 126041 MW; 64702195BAE8D11B CRC64;
MPDLKTILSA KASLTLAGVP TGFQPSLLAD LARAAGRVVF VAADDAAMRA IAATAPFFAP
ELEVVTFPAW DCLPYDRASP TLRVMAERVA ALHRLQAKAK GPQLVLATAN AATQRVLTPF
RIRQLVASLA PGERIGRDDL ATLLQANGYV RTETVHDHGE YAVRGGIVDL YPSGEEHALR
LDFFGDEIES VRSFDPADQR TIGRVDGFTL LPASEALLDA ESIKRFRTRY REKFGATATG
DPLYQAVSDG RRLAGMEHWL PLFEDKLATL FDHLGDALVV RDAGVAAAAE GRFEAIADYY
ENRMRAEGQQ PGSYRPLPAK ALYLDAEEWA TRLGETTAHV TTAFHEPESA RVVDFGVDGP
RDFAPERANQ ANVYEAVVDH LEKLRKDGRK PVLASYSGGS RDRLASLLKD HGLKGGKPVD
TWQEARGHAD TTRSFGVAMV VLPLDHGFTA PGIAVLTEQD MLGDRLIRRN KRKKSADAFL
AELATLSPGD LVVHADHGIG RYEGLTSIPV GKSPHDCVAL SYAGGDKLYV PVENLEVLTR
YGSGEDGASL DRLGGEAWQR RKSKMKERIR EIAGELIATA AERALRPGEV AEPDSSGYPS
FVDRFPYEPT DDQDRAIDDV LGDLSAGRPM DRLIVGDVGF GKTEVALRAA FVAAMGGMQV
AVVCPTTLLA RQHYNNFCQR FEGFPIKVGR MSRLVGTAEI KMVKEGAASG DLDVVIGTHA
LLAKNVSFKR LGLVIVDEEQ RFGVTHKERL KALKADVHML TLTATPIPRT LQMAMSGLRE
LSVIQTPPVD RLAVRTYVMP WDPVVLREAL LREHYRGGQS FLVTPRVADL TDIEEFLAKE
VPEIRYVIAH GQMSASEVEE RMSAFYEKRF EVLVSTTIIE SGIDIPSANT MIVNRADRFG
LAQLYQLRGR VGRSKTRAYA YMVTPPERQM TEAADKRLKV LSDLDTLGAG FQLASHDLDI
RGAGNLLGDE QSGHIKEVGY ELYQSMLEEA IMDAKAGGLA SRPRDFSPQI TVDAPILIPE
EYVPDLDLRM GLYRRLNDVD DAGEVAAFAA EMIDRFGPLP DATENLIRVI EIKLNAKRAC
IAKMDVGAKG VLVSFHGDKP PNVEGLLAYV DRLGGVAKLR PDAKLVLQRA WPDAKARLHG
ALQLSKGLAK AMG
//
