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Database: UniProt
Entry: Q9AKD5
LinkDB: Q9AKD5
Original site: Q9AKD5 
ID   MFD_RICTY               Reviewed;        1120 AA.
AC   Q9AKD5;
DT   20-MAR-2007, integrated into UniProtKB/Swiss-Prot.
DT   01-JUN-2001, sequence version 1.
DT   18-SEP-2019, entry version 116.
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=RT0586;
OS   Rickettsia typhi (strain ATCC VR-144 / Wilmington).
OC   Bacteria; Proteobacteria; Alphaproteobacteria; Rickettsiales;
OC   Rickettsiaceae; Rickettsieae; Rickettsia; typhus group.
OX   NCBI_TaxID=257363;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC   STRAIN=ATCC VR-144 / Wilmington;
RX   PubMed=11319266; DOI=10.1093/oxfordjournals.molbev.a003864;
RA   Andersson J.O., Andersson S.G.E.;
RT   "Pseudogenes, junk DNA, and the dynamics of Rickettsia genomes.";
RL   Mol. Biol. Evol. 18:829-839(2001).
RN   [2]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC VR-144 / Wilmington;
RX   PubMed=15317790; DOI=10.1128/jb.186.17.5842-5855.2004;
RA   McLeod M.P., Qin X., Karpathy S.E., Gioia J., Highlander S.K.,
RA   Fox G.E., McNeill T.Z., Jiang H., Muzny D., Jacob L.S., Hawes A.C.,
RA   Sodergren E., Gill R., Hume J., Morgan M., Fan G., Amin A.G.,
RA   Gibbs R.A., Hong C., Yu X.-J., Walker D.H., Weinstock G.M.;
RT   "Complete genome sequence of Rickettsia typhi and comparison with
RT   sequences of other Rickettsiae.";
RL   J. Bacteriol. 186:5842-5855(2004).
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
CC       family. RecG subfamily. {ECO:0000255|HAMAP-Rule:MF_00969}.
DR   EMBL; AJ293313; CAC33732.1; -; Genomic_DNA.
DR   EMBL; AE017197; AAU04051.1; -; Genomic_DNA.
DR   RefSeq; WP_011191032.1; NC_006142.1.
DR   SMR; Q9AKD5; -.
DR   STRING; 257363.RT0586; -.
DR   PRIDE; Q9AKD5; -.
DR   EnsemblBacteria; AAU04051; AAU04051; RT0586.
DR   KEGG; rty:RT0586; -.
DR   eggNOG; ENOG4108JA2; Bacteria.
DR   eggNOG; COG1197; LUCA.
DR   HOGENOM; HOG000216592; -.
DR   KO; K03723; -.
DR   OMA; KMRGYAY; -.
DR   OrthoDB; 234717at2; -.
DR   BioCyc; RTYP257363:G1G0L-592-MONOMER; -.
DR   Proteomes; UP000000604; 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: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; 2.30.30.840; -; 1.
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.
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; Complete proteome; Cytoplasm; DNA damage; DNA repair;
KW   DNA-binding; Helicase; Hydrolase; Nucleotide-binding.
FT   CHAIN         1   1120       Transcription-repair-coupling factor.
FT                                /FTId=PRO_0000281074.
FT   DOMAIN      591    756       Helicase ATP-binding. {ECO:0000255|HAMAP-
FT                                Rule:MF_00969}.
FT   DOMAIN      777    933       Helicase C-terminal. {ECO:0000255|HAMAP-
FT                                Rule:MF_00969}.
FT   NP_BIND     604    611       ATP. {ECO:0000255|HAMAP-Rule:MF_00969}.
FT   MOTIF       709    712       DEEQ box.
SQ   SEQUENCE   1120 AA;  127960 MW;  7D69676C29A9CE28 CRC64;
     MLQQKFPATA KCFFAIDNFT KHLNQDFILS VNNEEEALKL YKQAFFFSSN ENIYYFPSYD
     TIPYDYTSPN TNIISRRAET LTKLITNNNS KLLITHAANL LNKLPPKDFF SKYFLKLYPK
     IKFTIDELSM LLVENSFTRN ISSNDVGEFS VRGEIIDIIL PGPKAYRINF SWDYIESIKE
     FDINTQISTK YCTELVISPV SEIVLNSKTI GNFKNNYLRN FGVNHTDNPL YEAVISGRKF
     PGYEQLLPLF YDSCSSLVDY LNDPICIFDN LSKQEILEFE NSCNDFYLAR SNANKLKVNN
     FYPALSPASL YFTASAITEL LEQKNNILIS YENSEQASLI GNISSTSFME KKTIFDKLFE
     LIKANFHKKI IICSSVLSSF ERIKSIIQNY KYTFNEINKL DDAKASVINI GIIPLNQSFY
     TKEYLFITSS ELLEEKTLYT NTNKKLKNIL LELDNLAEGE FVVHKDHGIG QFLKLEAFEI
     QGKLHDFLKI LYSGNDKLYV PVENIEVIKK YGSNNVELDK LGSAAWHKSK AKLKDRIKEI
     SLHLIQIAAK RKLNISTPIE FDLEEYDKFC ANFPFIETED QLTAINDIRK DLTNGMLMDR
     LICGDVGFGK TEVAMRAVFM VAKSLNEYLP QVAVVVPTTI LCSQHFSRFI ERFKGFGLNI
     KQLSSVVSSQ EANIIRLELA SGKINIIIGT HTLLHKNIKF FNLKLLIIDE EQHFGVSQKE
     FLKSLKYSSH VLAMSATPIP RTLQMSLTGL KELSIIATPP LNRLEVRTSV MPFDTVIIRD
     ALLREHFRGG RSFYVVPRIK DMEDIEKQLK QIVPELSYKI AHGKMTPSKI DEVMSEFYAG
     KFDILISTTI IESGIDITEA NTMIIHNADT LGLSQLYQLR GRIGRGKIRG YAYLTVASNK
     KLMQHSLRRL EIIQNSCALG SGFTIASHDA DLRGFGNLIG EEQSGQIREV GAELYQEMLE
     EQIALLKDES IVSEQSFIPN INLGLSVFIP DHYVSDSALK IALYRRIGNL SNEIEVEKFK
     DEMIDRFGLL PIEFNNLLDI VKIKLLCFKL NIENLDSGDD GFVIRFYKNA DMSDKILKFV
     SRYSNQTKIK PNNKLVFIKK LVDKNIITEA NQLLWTLLEI
//
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