ID B3DY76_METI4 Unreviewed; 1060 AA.
AC B3DY76;
DT 22-JUL-2008, integrated into UniProtKB/TrEMBL.
DT 22-JUL-2008, sequence version 1.
DT 24-JAN-2024, entry version 96.
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 ECO:0000313|EMBL:ACD82353.1};
GN OrderedLocusNames=Minf_0293 {ECO:0000313|EMBL:ACD82353.1};
OS Methylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain
OS V4)).
OC Bacteria; Verrucomicrobiota; Methylacidiphilae; Methylacidiphilales;
OC Methylacidiphilaceae; Methylacidiphilum (ex Ratnadevi et al. 2023).
OX NCBI_TaxID=481448 {ECO:0000313|EMBL:ACD82353.1, ECO:0000313|Proteomes:UP000009149};
RN [1] {ECO:0000313|EMBL:ACD82353.1, ECO:0000313|Proteomes:UP000009149}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Isolate V4 {ECO:0000313|Proteomes:UP000009149};
RX PubMed=18593465; DOI=10.1186/1745-6150-3-26;
RA Hou S., Makarova K.S., Saw J.H., Senin P., Ly B.V., Zhou Z., Ren Y.,
RA Wang J., Galperin M.Y., Omelchenko M.V., Wolf Y.I., Yutin N., Koonin E.V.,
RA Stott M.B., Mountain B.W., Crowe M.A., Smirnova A.V., Dunfield P.F.,
RA Feng L., Wang L., Alam M.;
RT "Complete genome sequence of the extremely acidophilic methanotroph isolate
RT V4, Methylacidiphilum infernorum, a representative of the bacterial phylum
RT Verrucomicrobia.";
RL Biol. Direct 3:26-26(2008).
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; CP000975; ACD82353.1; -; Genomic_DNA.
DR AlphaFoldDB; B3DY76; -.
DR STRING; 481448.Minf_0293; -.
DR KEGG; min:Minf_0293; -.
DR eggNOG; COG1197; Bacteria.
DR HOGENOM; CLU_005122_1_3_0; -.
DR Proteomes; UP000009149; 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; 3.40.50.300; 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};
KW Helicase {ECO:0000256|ARBA:ARBA00022806, ECO:0000313|EMBL:ACD82353.1};
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}.
FT DOMAIN 546..707
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 728..882
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1060 AA; 121479 MW; EB825A1F7BD66941 CRC64;
MTANMATLNL NLQNNKEGSC PSQASKEMTF SYEKWLDHPL LKNLHHRIIE QRNCAIDSLP
LSGQSFFLAS FLRVYRGPLL VIAENIKKTN EIALGLECWG SPYLILPEVE PVPAESLPDP
TFLAERLSTA YSLLDFPSGI IITTEQAMEE ALPSPELLKE KRLPLAVENS FDRKAVIEKL
VTAGYERVDS VDCRGQFAVR GAIIDTFCWD SCYPLRMEWE GNRLISLRQF DPITQRSFKP
LAQAHLCFFN LEDMLKSGAS LHDYLPQAIP TFWSKSPEIP IPDVGIHFES HLFLDTPKGD
WFYQERRWQL FLEALGRWIE KQWEVVIFVN NEGEESRLKE ILNNQGISTE KILFSKSPLL
RGFCWPEAKL SILTDAEIFG RYQNQKILLR SQQKNDYFRA PLGSDIFEQW KEGDIVVHLQ
KGICKFKGIK TIEGTNTEMV ELEFDQQAKL YVPIDQAHLI ARYIGGTKKL PKLDSLGGNR
WIKAKRAAQK AVTDLAEKLL KINAEREVLE GFAFPQDDQW QKEFEEAFIY EETPDQLKAI
EETKKDMESK RPMDRLICGD VGFGKTEVAI RAIFKAVMGG KQAVLLTPTT VLAKQHFNTL
RERFADYPIH TALLCRFVKN SEEKEILAGL KEGTVDVVVG THRLLSADVE FKDLGLIVID
EEQRFGVLQK EKWKEKFRFI DVLLLSATPI PRTLYLAMAG ARDMSLIETP PPNRFPIETI
VGPYDERVIR QAIERELNRG GQVYFLHNRI RTIEKVASRL KSLLPSIKID IGHGRMKKHE
LEEVMERFVE GKIDVLLATS IIENGLDIPN ANTIIIDRAD LFGLADLYQL RGRVGRSNQK
AYAYLLLPRD LFIQSDAKKR IKAMQEHSQL GTGFQIALRD LEIRGAGNLL GTSQSGHIAS
IGFELYCKLL KKAIQKIQGK ETEPLIDCRL SLDFLLPEPG GGRHALAYIP FSYMERRQER
LHAYRQLAEA SQPEELEEIK KSWKDRYGPW PEPVEHLFSL VEIRIIAARK GIERVETERD
KLKLIKNNDY LFTKQGKFPR LIEAEPKDKI LQIKKWLESF
//
