ID I3C2W5_9FLAO Unreviewed; 1126 AA.
AC I3C2W5;
DT 11-JUL-2012, integrated into UniProtKB/TrEMBL.
DT 11-JUL-2012, sequence version 1.
DT 27-MAR-2024, entry version 53.
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=JoomaDRAFT_0935 {ECO:0000313|EMBL:EIJ37958.1};
OS Galbibacter orientalis DSM 19592.
OC Bacteria; Bacteroidota; Flavobacteriia; Flavobacteriales;
OC Flavobacteriaceae; Galbibacter.
OX NCBI_TaxID=926559 {ECO:0000313|EMBL:EIJ37958.1, ECO:0000313|Proteomes:UP000004690};
RN [1] {ECO:0000313|EMBL:EIJ37958.1, ECO:0000313|Proteomes:UP000004690}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=DSM 19592 {ECO:0000313|EMBL:EIJ37958.1,
RC ECO:0000313|Proteomes:UP000004690};
RG US DOE Joint Genome Institute (JGI-PGF);
RA Lucas S., Copeland A., Lapidus A., Bruce D., Goodwin L., Pitluck S.,
RA Peters L., Chertkov O., Ovchinnikova G., Kyrpides N., Mavromatis K.,
RA Detter J.C., Han C., Land M., Hauser L., Markowitz V., Cheng J.-F.,
RA Hugenholtz P., Woyke T., Wu D., Tindall B., Brambilla E., Klenk H.-P.,
RA Eisen J.A.;
RT "Improved High-Quality Draft genome of Joostella marina DSM 19592.";
RL Submitted (FEB-2012) 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; JH651379; EIJ37958.1; -; Genomic_DNA.
DR RefSeq; WP_008611036.1; NZ_JH651379.1.
DR AlphaFoldDB; I3C2W5; -.
DR STRING; 926559.JoomaDRAFT_0935; -.
DR eggNOG; COG1197; Bacteria.
DR HOGENOM; CLU_005122_1_4_10; -.
DR Proteomes; UP000004690; 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; 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:UP000004690}.
FT DOMAIN 577..738
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 747..913
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1126 AA; 128942 MW; 881C56010D4E87C6 CRC64;
MSNTITLAGL SQVITTYKES LQQQKLGRSI ANSKNNTYLK GLVGSSISIV IANAFRETEL
PFLLVLNDKE EAAYHLNDLE QLIGEKDVLF YPGSYRRPYQ IEETDNANIL LRAEVLNRIN
SRKKPAIIVT YPEALFEKVV TKKELERSTL KINLNDKLSI DFINETLFEY KFKRVDFVTE
PGEFSVRGGI VDVFSFSNDE PYRIEFFGEE VDSIRTFDVE TQLSTEKLKK INIIPNVENK
FLEEERESFL KYVSAKTVVF SRNSELLFSR IDGLFSKAEE AFTKLSKEIK HAPPKELFCD
GALLKNQLKG FITIHLSAPK ANDIAYETIL FNTTPQPSFN KQFDLLIEDL NSNHEKGYKN
YIYCVSEQQA KRFHDIFDDV ETEVHYQTVV FSMYQGFIDN EFKIACYTDH QIFERYHKFQ
LKNGYSKKQA ITLKELTNLE IGDYVTHIDH GIGTFGGLQK IQVEGKLQEA IKLIYGERDI
LYVSIHSLHK ITKFNGKDGK PPKIYKLGSA AWKNLKKKTK SKVKEIAFNL IKLYAKRKTE
KGFQYGPDSY LQNELEASFL YEDTPDQSTA TEDVKRDMEN EQPMDRLVCG DVGFGKTEVA
IRAAFKAVDN GKQVAILVPT TILAFQHHKT FSERLSDMPV TIDYLNRFRT AKEKRDTLER
LEEGKVDIII GTHQLVNKNV KFKDLGLLIV DEEQKFGVAV KDKLKTIKEN VDVLTLTATP
IPRTLQFSLM AARDLSVITT PPPNRYPIES NVIQLNEEII RDAVSYEIQR GGQIFFIHNR
IENIKEVAGM VQRLVPDAKI GIGHGQMDGK KLEQLMLSFM NGDFDVLVAT SIIESGLDVP
NANTIFINNA NNFGLSDLHQ MRGRVGRSNK KAFCYFITPP YSAMTDDARK RIQALEQFTE
LGSGFNIAMK DLEIRGAGDI LGGEQSGFMN EIGFDTYQKI LQEAIEELKE NEFADLYETP
KNEDKVYVKD TQIDTDFQLL FPDDYINAIT ERLNLYNELS TIKTEEALTL YETRLIDRFG
ELPEEATDLL NSVRIKWIAT ELGLERIILK QGKMVGYFIA DQQSSFYQSN RFRNVLQYIQ
THPNVGKIKE KQTRNGLRLL ITFENIKSIN KALNTLKPFL DRIYVA
//
