ID H1YFI3_9SPHI Unreviewed; 1119 AA.
AC H1YFI3;
DT 21-MAR-2012, integrated into UniProtKB/TrEMBL.
DT 21-MAR-2012, sequence version 1.
DT 24-JAN-2024, entry version 54.
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=Mucpa_3187 {ECO:0000313|EMBL:EHQ27291.1};
OS Mucilaginibacter paludis DSM 18603.
OC Bacteria; Bacteroidota; Sphingobacteriia; Sphingobacteriales;
OC Sphingobacteriaceae; Mucilaginibacter.
OX NCBI_TaxID=714943 {ECO:0000313|EMBL:EHQ27291.1, ECO:0000313|Proteomes:UP000002774};
RN [1] {ECO:0000313|EMBL:EHQ27291.1, ECO:0000313|Proteomes:UP000002774}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=DSM 18603 {ECO:0000313|EMBL:EHQ27291.1,
RC ECO:0000313|Proteomes:UP000002774};
RG US DOE Joint Genome Institute (JGI-PGF);
RA Lucas S., Han J., Lapidus A., Bruce D., Goodwin L., Pitluck S., Peters L.,
RA Kyrpides N., Mavromatis K., Ivanova N., Mikhailova N., Held B.,
RA Detter J.C., Tapia R., Han C., Land M., Hauser L., Markowitz V.,
RA Cheng J.-F., Hugenholtz P., Woyke T., Wu D., Tindall B., Brambilla E.,
RA Klenk H.-P., Eisen J.A.;
RT "The permanent draft genome of Mucilaginibacter paludis DSM 18603.";
RL Submitted (SEP-2011) 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; CM001403; EHQ27291.1; -; Genomic_DNA.
DR RefSeq; WP_008507685.1; NZ_CM001403.1.
DR AlphaFoldDB; H1YFI3; -.
DR STRING; 714943.Mucpa_3187; -.
DR eggNOG; COG1197; Bacteria.
DR HOGENOM; CLU_005122_1_3_10; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000002774; 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; 3.
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:UP000002774}.
FT DOMAIN 575..736
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 757..911
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1119 AA; 128177 MW; E68D46FCA5E5B974 CRC64;
MNIREILERY KTDERVQTLA KALNSVKHPR VQLRGLVGSS DAAMAVALYF LKHSHMLFIL
PDREEAGYFQ SDLENLLDKE ILLFPSSYRK PFEFTQPDSS NVLARAEVLN ELNHTSEYGQ
LIVTYPEALA EKVIDRASLE KNTLEIGVTN KLSLDFINEF LIEYAFERVD FVYSPGQFSI
RGGIVDIFSF SHDLPYRVEF FGDFIESIRT FEIESQLSVE QVKTITIVPN VQSKFLTENN
ISLLEYIDPS TQIWIKDVQF TLDIIQSGYK KATQLWKALS AEDKNANPDW IDPKFGFTDE
KMIADQLHDF GLVEFGKQFF YTPTDSVQFD IRPQPSFNKD FSLLIHNFKN NEAEKIENCI
FTDSTRQLER LYAIFEDLDK TIKFTPVNIS IREGFIDYAQ KIACYTDHQI FDRYYKYKLK
KGYQRSQAIT LKDLRELKPG DYITHIDHGI GKYAGLEKVE VNGKMQEMIR LLYSDNDLLY
VNINSLNRIS KYSGKEGTVP KMNKLGTDAW EKLKKTTKKK VKDIARDLIK LYAVRKAQDG
NAFSPDSYLQ TELEASFIYE DTPDQEKATV DFKRDMESPH PMDRLICGDV GFGKTEIAIR
AAFKAVADSK QVAVLVPTTI LAAQHYKTFT DRLKGFPCNI DYVNRFKTSK QIKDTLQRLA
EGKLDIIIGT HRLVSKDVKF KDLGLMIIDE EQKFGVSTKE KLKAMRVNVD TLTLTATPIP
RTLHFSLMGA RDLSIISTPP PNRQPVVTEL HVFNDKLIKE AVEYEIDRNG QVFFIHNRVA
DLPQLGGMIK KLVPKARIGI AHGQLEGDDL EDVMLKFVSN EYDVLVATTI IEAGLDIPNA
NTIIINYAHM FGLSDLHQMR GRVGRSNKKA FCYLLSPPLS TLTSEARKRL SAIEEFSDLG
SGFNVAMRDL DIRGSGNLLG AEQSGFIAEI GFEMYHKILD EAIQELKDDE FKGLFKDEKP
RPFISFTQID TDLEILIPDE YVTSIPERYN LYTELSKLEN ETELAAFAQQ LHDRFGPVPR
QVNDLMNTMR LQWLGKSIGF EKLSLKKNVL RGYFIANQQS PYFETTQFRQ VLNFMQANPR
RCNMKEVKNT LRISIDNVRT IDEAVAILEE MMEPVVGYS
//
