ID A0A0Q6KJW4_9SPHN Unreviewed; 1157 AA.
AC A0A0Q6KJW4;
DT 20-JAN-2016, integrated into UniProtKB/TrEMBL.
DT 20-JAN-2016, sequence version 1.
DT 24-JAN-2024, entry version 36.
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=ASG67_06610 {ECO:0000313|EMBL:KQU55785.1};
OS Sphingomonas sp. Leaf339.
OC Bacteria; Pseudomonadota; Alphaproteobacteria; Sphingomonadales;
OC Sphingomonadaceae; Sphingomonas.
OX NCBI_TaxID=1736343 {ECO:0000313|EMBL:KQU55785.1, ECO:0000313|Proteomes:UP000051371};
RN [1] {ECO:0000313|EMBL:KQU55785.1, ECO:0000313|Proteomes:UP000051371}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Leaf339 {ECO:0000313|EMBL:KQU55785.1,
RC ECO:0000313|Proteomes:UP000051371};
RA Gilbert D.G.;
RL Submitted (OCT-2015) to the EMBL/GenBank/DDBJ databases.
RN [2] {ECO:0000313|EMBL:KQU55785.1, ECO:0000313|Proteomes:UP000051371}
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=Leaf339 {ECO:0000313|EMBL:KQU55785.1,
RC ECO:0000313|Proteomes:UP000051371};
RA Schulze-Lefert P.;
RT "Functional overlap of the Arabidopsis leaf and root microbiotas.";
RL Submitted (NOV-2015) 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}.
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:KQU55785.1}.
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DR EMBL; LMRS01000012; KQU55785.1; -; Genomic_DNA.
DR RefSeq; WP_056528148.1; NZ_LMRS01000012.1.
DR AlphaFoldDB; A0A0Q6KJW4; -.
DR STRING; 1736343.ASG67_06610; -.
DR OrthoDB; 9804325at2; -.
DR Proteomes; UP000051371; 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; 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}; Reference proteome {ECO:0000313|Proteomes:UP000051371}.
FT DOMAIN 627..788
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000259|PROSITE:PS51192"
FT DOMAIN 809..963
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000259|PROSITE:PS51194"
SQ SEQUENCE 1157 AA; 126048 MW; DC421BE72238ADA2 CRC64;
MPDLKTILSA KTPLTLAGVP TGFQPSLLAD LARAAGRVVF ITADDAAMRA IASTAPFFAP
ELEVVTFPAW DCLPYDRASP TLRVMAERVA ALYRLQGKAP KSGGVPQLVL TTANAATQRV
LTPFRIRQLV ASLAPGERIG RDDLATLLQA NGYVRTETVH DHGEYSVRGG IVDLFPSGEE
QALRLDFFGD EIESVRTFDP ADQRTTGRVD GFTLLPASEA LLDADSIKRF RTRYRETFGA
TATGDPLYQA VSDGRRQAGM EHWLALFEDK LATLFDHLGD AVVVRDGAVA AAAESRIEAI
ADYYDNRKRA EAAQPGSYRP LPAKALYLDA EAWATGLAEA TAHVTTAFHE PESTRVLDFG
VDGPRDFGAE RAAQANVYEA VVAHVEKLRR EGRKPVLASY SVGARDRLGS LLKDYGLKGG
KNAETWQEAL GVADTSKSFG VALVMLPLDH GFAAPGVAVL TEQDMLGDRL IRRNKRKKSA
DAFLAELATL SPGDLVVHSD HGIGRYEGLT SIPVGKSPHD CVALSYAGGD KLYVPVENLE
VLTRYGSGED GAALDRLGGE AWQRRKSKMK ERIREIAGEL IAVAAERALR PGEVAEPDAS
GYPSFVDRFP YDPTDDQDRA IDDVLGDLAA GKPMDRLIVG DVGFGKTEVA LRAAFVAAMG
GMQVAIVCPT TLLARQHFNN FSARFEGFPI KIGRMSRLVG TAETKATKEG TASGDLDVVI
GTHALLAKNV SFKRLGLVIV DEEQRFGVTH KERLKALKAD VHMLTLTATP IPRTLQMAMS
GLRELSVIQT PPVDRLAVRT YIMPWDPVVL REALLREHYR GGQSFMVTPR VADLPDIEEF
LRNEVPEIRY VIAHGQMSAS EVEERMSAFY EKRFEVLVST TIIESGLDIP SANTMIVNRA
DRFGLAQLYQ LRGRVGRSKT RAYAYMVTPP ERQMTETADK RLKVLSDLDT LGAGFQLASH
DLDIRGAGNL LGDEQSGHIK EVGYELYQSM LEEAIMDAKA GGFASRPRDF SPQITVDAPI
LIPEDYVPDL DLRMGLYRRL NDVEDAGEVE AFAAEMIDRF GALPDATENL IRVIEIKLNA
KKACIAKMDV GAKGVLVSFH DDKPPNVAGL IAYVDRLGGV AKLRPDSKLV LQRVWPDAKA
RLHGALQLSK GLAKVAG
//
