MFD_HELPY
ID MFD_HELPY Reviewed; 999 AA.
AC O26066;
DT 15-DEC-1998, integrated into UniProtKB/Swiss-Prot.
DT 01-JAN-1998, sequence version 1.
DT 03-AUG-2022, entry version 132.
DE RecName: Full=Transcription-repair-coupling factor {ECO:0000255|HAMAP-Rule:MF_00969};
DE Short=TRCF {ECO:0000255|HAMAP-Rule:MF_00969};
DE EC=3.6.4.- {ECO:0000255|HAMAP-Rule:MF_00969};
GN Name=mfd {ECO:0000255|HAMAP-Rule:MF_00969}; OrderedLocusNames=HP_1541;
OS Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori).
OC Bacteria; Proteobacteria; Epsilonproteobacteria; Campylobacterales;
OC Helicobacteraceae; Helicobacter.
OX NCBI_TaxID=85962;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 700392 / 26695;
RX PubMed=9252185; DOI=10.1038/41483;
RA Tomb J.-F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G.,
RA Fleischmann R.D., Ketchum K.A., Klenk H.-P., Gill S.R., Dougherty B.A.,
RA Nelson K.E., Quackenbush J., Zhou L., Kirkness E.F., Peterson S.N.,
RA Loftus B.J., Richardson D.L., Dodson R.J., Khalak H.G., Glodek A.,
RA McKenney K., FitzGerald L.M., Lee N., Adams M.D., Hickey E.K., Berg D.E.,
RA Gocayne J.D., Utterback T.R., Peterson J.D., Kelley J.M., Cotton M.D.,
RA Weidman J.F., Fujii C., Bowman C., Watthey L., Wallin E., Hayes W.S.,
RA Borodovsky M., Karp P.D., Smith H.O., Fraser C.M., Venter J.C.;
RT "The complete genome sequence of the gastric pathogen Helicobacter
RT pylori.";
RL Nature 388:539-547(1997).
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:0000255|HAMAP-Rule:MF_00969}.
CC -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000255|HAMAP-Rule:MF_00969}.
CC -!- SIMILARITY: In the N-terminal section; belongs to the UvrB family.
CC {ECO:0000255|HAMAP-Rule:MF_00969}.
CC -!- SIMILARITY: In the C-terminal section; belongs to the helicase family.
CC RecG subfamily. {ECO:0000255|HAMAP-Rule:MF_00969}.
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DR EMBL; AE000511; AAD08581.1; -; Genomic_DNA.
DR PIR; E64712; E64712.
DR RefSeq; NP_208332.1; NC_000915.1.
DR RefSeq; WP_000616334.1; NC_018939.1.
DR AlphaFoldDB; O26066; -.
DR SMR; O26066; -.
DR DIP; DIP-3189N; -.
DR IntAct; O26066; 8.
DR MINT; O26066; -.
DR STRING; 85962.C694_07985; -.
DR PaxDb; O26066; -.
DR PRIDE; O26066; -.
DR EnsemblBacteria; AAD08581; AAD08581; HP_1541.
DR KEGG; hpy:HP_1541; -.
DR PATRIC; fig|85962.47.peg.1657; -.
DR eggNOG; COG1197; Bacteria.
DR OMA; IIESGIH; -.
DR PhylomeDB; O26066; -.
DR Proteomes; UP000000429; Chromosome.
DR GO; GO:0005737; C:cytoplasm; IEA:UniProtKB-SubCell.
DR GO; GO:0043138; F:3'-5' DNA helicase activity; IBA:GO_Central.
DR GO; GO:0005524; F:ATP binding; IEA:UniProtKB-UniRule.
DR GO; GO:0003684; F:damaged DNA binding; IEA:InterPro.
DR GO; GO:0016787; F:hydrolase activity; IEA:UniProtKB-KW.
DR GO; GO:0006310; P:DNA recombination; IBA:GO_Central.
DR GO; GO:0006270; P:DNA replication initiation; IBA:GO_Central.
DR GO; GO:0006268; P:DNA unwinding involved in DNA replication; IBA:GO_Central.
DR GO; GO:0006302; P:double-strand break repair; IBA:GO_Central.
DR GO; GO:0006355; P:regulation of transcription, DNA-templated; IEA:UniProtKB-UniRule.
DR GO; GO:0000716; P:transcription-coupled nucleotide-excision repair, DNA damage recognition; IEA:UniProtKB-UniRule.
DR Gene3D; 3.40.50.300; -; 2.
DR Gene3D; 3.90.1150.50; -; 1.
DR HAMAP; MF_00969; TRCF; 1.
DR InterPro; IPR036101; CarD-like/TRCF_dom_sf.
DR InterPro; IPR003711; CarD-like/TRCF_domain.
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; IPR037235; TRCF-like_C_D7.
DR InterPro; IPR005118; TRCF_C.
DR InterPro; IPR041471; UvrB_inter.
DR Pfam; PF02559; CarD_CdnL_TRCF; 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; SSF141259; 1.
DR SUPFAM; SSF143517; SSF143517; 1.
DR SUPFAM; SSF52540; SSF52540; 3.
DR TIGRFAMs; TIGR00580; mfd; 1.
DR PROSITE; PS51192; HELICASE_ATP_BIND_1; 1.
DR PROSITE; PS51194; HELICASE_CTER; 1.
PE 3: Inferred from homology;
KW ATP-binding; Cytoplasm; DNA damage; DNA repair; DNA-binding; Helicase;
KW Hydrolase; Nucleotide-binding; Reference proteome.
FT CHAIN 1..999
FT /note="Transcription-repair-coupling factor"
FT /id="PRO_0000102168"
FT DOMAIN 499..656
FT /note="Helicase ATP-binding"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
FT DOMAIN 677..833
FT /note="Helicase C-terminal"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
FT MOTIF 609..612
FT /note="DEEH box"
FT BINDING 512..519
FT /ligand="ATP"
FT /ligand_id="ChEBI:CHEBI:30616"
FT /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
SQ SEQUENCE 999 AA; 113090 MW; EE550EFB2A2946E5 CRC64;
MIQSSLYRAL NKGFDYQILA CKDFKESELA KEVISYFKPN TKAILFPEFR AKKNDDLRSF
FEEFLQLLGG LREFYQALEN KQETIIIAPI SALLHPLPKK ELLESFKITL LEKYNLKDLK
DKLFYYGYEI LDLVEVEGEA SFRGDIVDIY APNSKAYRLS FFDTECESIK EFDPITQMSL
KEDLLEIEIP PTLFSLDESS YKDLKTKVEQ SPLNSFSKDL TSFGLWFLGE KAQDLLIVYK
SIISPRALEE IQELASLNEL DCERFKFLKV LENAQGYEDL EIHAHALEGF IALHSNHKIT
LLAPNKTILD NAISALDAGN MECVIAPFVL NFKTPDGIFI SLNSFERKKK RQKSKLALNE
LNPGEWVVHD DYGVGVFSQL VQHSVLGSKR DFLEIAYLGE DKLLLPVENL HLIARYVAQS
DSVPAKDRLG KGSFLKLKAK VRTKLLEIAS KIIELAAERN LILGKKMDVH LAELEVFKSH
AGFEYTSDQE KAIAEISKDL SSHRVMDRLL SGDVGFGKTE VAMHAIFCAF LNGFQSALVV
PTTLLAHQHF ETLRARFENF GVKVARLDRY ASEKNKLLKA VELGQVDALI GTHAILGAKF
KNLGLVVVDE EHKFGVKQKE ALKELSKSVH FLSMSATPIP RTLNMALSQI KGISSLKTPP
TDRKPSRTFL KEKNDELLKE IIYRELRRNG QIFYIHNHIA SILKVKTKLE DLIPKLKIAI
LHSQINANES EEIMLEFAKG NYQVLLCTSI VESGIHLPNA NTIIIDNAQN FGLADLHQLR
GRVGRGKKEG FCYFLIEDQK SLNEQALKRL LALEKNSYLG SGESVAYHDL EIRGGGNLLG
QDQSGHIKNI GYALYTRMLE DAIYELSGGK KRLEKSVEIQ LGVSAFLNPE LIASDSLRLD
LYRRLSLCEN TDEVGQIHEE IEDRFGKIDD LSAQFLQIIT LKILANQLGI IKLSNFNQNI
TITYSDEKKE SLKAPSKDDN DILETLLKHL RAQISLKRR
