ID J3IW69_9PSED Unreviewed; 1058 AA.
AC J3IW69;
DT 03-OCT-2012, integrated into UniProtKB/TrEMBL.
DT 03-OCT-2012, sequence version 1.
DT 24-JAN-2024, entry version 52.
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=PMI38_02441 {ECO:0000313|EMBL:EJN38103.1};
OS Pseudomonas sp. GM84.
OC Bacteria; Pseudomonadota; Gammaproteobacteria; Pseudomonadales;
OC Pseudomonadaceae; Pseudomonas.
OX NCBI_TaxID=1144340 {ECO:0000313|EMBL:EJN38103.1, ECO:0000313|Proteomes:UP000007504};
RN [1] {ECO:0000313|EMBL:EJN38103.1, ECO:0000313|Proteomes:UP000007504}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=GM84 {ECO:0000313|EMBL:EJN38103.1,
RC ECO:0000313|Proteomes:UP000007504};
RX PubMed=23045501; DOI=10.1128/JB.01243-12;
RA Brown S.D., Utturkar S.M., Klingeman D.M., Johnson C.M., Martin S.L.,
RA Land M.L., Lu T.Y., Schadt C.W., Doktycz M.J., Pelletier D.A.;
RT "Twenty-one genome sequences from Pseudomonas species and 19 genome
RT sequences from diverse bacteria isolated from the rhizosphere and
RT endosphere of Populus deltoides.";
RL J. Bacteriol. 194:5991-5993(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}.
CC -!- CAUTION: The sequence shown here is derived from an EMBL/GenBank/DDBJ
CC whole genome shotgun (WGS) entry which is preliminary data.
CC {ECO:0000313|EMBL:EJN38103.1}.
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DR EMBL; AKJC01000133; EJN38103.1; -; Genomic_DNA.
DR AlphaFoldDB; J3IW69; -.
DR PATRIC; fig|1144340.3.peg.2302; -.
DR Proteomes; UP000007504; 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; 3.40.50.11140; -; 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}; 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 526..687
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 708..862
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1058 AA; 118320 MW; AEFE008687C95732 CRC64;
MPSLYRLPEL SHGILVVPIT TALHRLAPTR FLLGSSLVLD VGQTIDVEQM RTRLEASGYR
CVDTVYEHGE FAVRGALIDL FPMGSKLPYR IDLFDDEIET LRTFDPETQR SIDKVDSIRL
LPAREFPMQK EEVTRFKARF RERFDVDFRR SAIFQDLASG IIPAGIEYYL PLFFEETSTL
FDYLPSDTQV FSLPGVEQAA EHFWNDVRGR YEDRRGDLTR PLLPPAELFL PVEDCFAQLK
QWPRVVVSAD EVEPGAGRER FPARALPNLA IEAKANQPLA ALSEFLDQFP GRVLFTAESA
GRREVLLELL ERLKLRPQTV EGWTDFITGK ERLAITIAPL DEGLLLEDPG LALVAESPLF
GQRVMQRRRR DKRGEAANDA VIKNLTELRE GAPVVHIDHG VGRYLGLATL EIEGQAAEFL
TLEYAEGAKL YVPVANLHLI ARYTGSDDAL APLHRLGSEA WQKAKRKAAE QVRDVAAELL
DIYARRAARK GYAFADPAAD YATFSAGFPF EETPDQQNAI EAVRADMLAA KPMDRLVCGD
VGFGKTEVAM RAAFIAVHSG RQVAVLVPTT LLAQQHYNSF RDRFADWPVT VEVMSRFKSA
KEVAAAAADL AEGKIDILIG THKLLQDDVR FKDLGLVVID EEHRFGVRQK EQLKALRSEV
DILTLTATPI PRTLNMAVAG MRDLSIIATP PARRLSVRTF VMEHNNSTVK EALLRELLRG
GQVYYLHNDV KTIEKCAADL AELVPEARIG IGHGQMRERE LEQVMSDFYH KRFNVLIAST
IIETGIDVPS ANTIVIERAD KFGLAQLHQL RGRVGRSHHQ AYAYLLTPAR QKVSSDAEKR
LEAIANTQDL GAGFVLATND LEIRGAGELL GEGQSGQIQA VGFTLYMEML ERAVKAIRKG
AQPNLEQPLS GGPEINLRLP ALIPEDYLPD VHARLILYKR IASAADEEGL KDLQVEMIDR
FGLLPEPTKN LMRLTQLKLQ AEKLGIKKVD AGPNGGKLEF EAETPVDPLT LIKLIQGQPK
RYKFEGATQF RFLVPMERPD ERFNTLEALF ERLTPQTA
//
