ID J7Q5B2_METSZ Unreviewed; 1178 AA.
AC J7Q5B2;
DT 31-OCT-2012, integrated into UniProtKB/TrEMBL.
DT 31-OCT-2012, sequence version 1.
DT 27-MAR-2024, entry version 61.
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 OrderedLocusNames=BN69_3348 {ECO:0000313|EMBL:CCJ08799.1};
OS Methylocystis sp. (strain SC2).
OC Bacteria; Pseudomonadota; Alphaproteobacteria; Hyphomicrobiales;
OC Methylocystaceae; Methylocystis.
OX NCBI_TaxID=187303 {ECO:0000313|EMBL:CCJ08799.1, ECO:0000313|Proteomes:UP000005263};
RN [1] {ECO:0000313|EMBL:CCJ08799.1, ECO:0000313|Proteomes:UP000005263}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=SC2 {ECO:0000313|EMBL:CCJ08799.1,
RC ECO:0000313|Proteomes:UP000005263};
RX PubMed=23045511; DOI=10.1128/JB.01446-12;
RA Dam B., Dam S., Kube M., Reinhardt R., Liesack W.;
RT "Complete Genome Sequence of Methylocystis sp. Strain SC2, an Aerobic
RT Methanotroph with High-Affinity Methane Oxidation Potential.";
RL J. Bacteriol. 194:6008-6009(2012).
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; HE956757; CCJ08799.1; -; Genomic_DNA.
DR RefSeq; WP_014892825.1; NC_018485.1.
DR AlphaFoldDB; J7Q5B2; -.
DR STRING; 187303.BN69_3348; -.
DR KEGG; msc:BN69_3348; -.
DR PATRIC; fig|187303.17.peg.3617; -.
DR eggNOG; COG1197; Bacteria.
DR HOGENOM; CLU_005122_1_3_5; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000005263; 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; 3.40.50.11180; -; 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; 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}; 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}.
FT DOMAIN 644..805
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 826..980
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1178 AA; 129610 MW; 3110174B934DC8B6 CRC64;
MSAAATKLKK AAAGLEAARS GLVKGERLIF AHAPDGFDAF VSADLARALA REAEGQAAVF
VHVARDGARS AAFRNALRFA NPDVEILDIP GWDCQPYDRV SPHAGVVARR MTALSRLTRA
KSSSERPRVV TTTVDCLLQR VPPQKMVSAE SFAAAPGNVV KLDELALWLE SNGYLRASTV
RETGEYAQRG GIVDLYPPGL PAPIRLDFFG ETLESIRSFD PDTQRATGQL RSLDLTPMSE
VRLTSDTMRR FRQSYAARFG GQTRGDALYE AVSEGRRFHG MEHWLPLFYE RMDTLFDYLG
EAPVVLDPLV EDAAAERVKQ IEDYYDARKY AHDLDPAASN YKPLEPRALY LSLEDWRAAI
EGRAAAQFTP FAAHEGQKAI DCGARPGRDF APERNTPDVN VFQAAADHIE ALRDAGGTVV
VTGWSEGSCE RLGHVLAEHG APDLPRVASL PQALSKAVSI AVLGIEHGFE TDAYAVVGEQ
DILGDRFVRR RRKRKPNENL LGEVAALSAG DLVVHVDHGI GRFVGLETIS AAGAPHDCLE
LHYAGGDKLY LPVENIELLT RYGGEDAEAQ LDRLGGAGWQ SRKSRMKNRI REMAKGLIEI
AAQRQLREAP KLIAPEGLYD EFCARFPYDE TEDQLAAIDA TLDDLAAGRP MDRLVCGDVG
FGKTEVALRA AFCAAINGKQ VAVVAPTTLL ARQHYKTFTE RFAGLPVRIG RLSRMVGAAE
ARETKKDLAE GRIEILIGTH AVLGKTVSFK DLGLVIIDEE QHFGVGHKER LKELRAEVHV
LTLSATPIPR TLQLAMTGVR ELSIIATPPI DRLAVRSFVS PFDSLIVREA LLRERYRGGQ
AFFVCPRIED LEEAAAFLRE NAPESKFVTA HGQMSASELE DKMSAFCDGK FDILLSTTIV
ESGLDIPRAN TLIVWRADMF GLAQLYQLRG RVGRAKLRAY ALFTTPANRT ITPQAQKRLD
VLQSLDTLGA GFQLASHDLD IRGAGNLLGE EQSGHIREVG YELYQQMLAD AITLLKAGVE
EPQEEAWSPT IAIGAPVTIP EDYVADLTLR LQLYRRLSTL ETDQDIEAFA AEMIDRFGPI
PPEVEQLLEI VAIKALCRRA HVEKIDAGPK GVIVAFREDK FANPAGLVRY VAEQRTSAKV
RPDMRVVFIR EFENTKQRLA GTRRILRALV EIAEKKAA
//
