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MFD_STAS1
ID   MFD_STAS1               Reviewed;        1170 AA.
AC   Q49V12;
DT   03-APR-2007, integrated into UniProtKB/Swiss-Prot.
DT   13-SEP-2005, sequence version 1.
DT   03-AUG-2022, entry version 124.
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=SSP2253;
OS   Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / DSM
OS   20229 / NCIMB 8711 / NCTC 7292 / S-41).
OC   Bacteria; Firmicutes; Bacilli; Bacillales; Staphylococcaceae;
OC   Staphylococcus.
OX   NCBI_TaxID=342451;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC 15305 / DSM 20229 / NCIMB 8711 / NCTC 7292 / S-41;
RX   PubMed=16135568; DOI=10.1073/pnas.0502950102;
RA   Kuroda M., Yamashita A., Hirakawa H., Kumano M., Morikawa K., Higashide M.,
RA   Maruyama A., Inose Y., Matoba K., Toh H., Kuhara S., Hattori M., Ohta T.;
RT   "Whole genome sequence of Staphylococcus saprophyticus reveals the
RT   pathogenesis of uncomplicated urinary tract infection.";
RL   Proc. Natl. Acad. Sci. U.S.A. 102:13272-13277(2005).
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; AP008934; BAE19398.1; -; Genomic_DNA.
DR   RefSeq; WP_011303869.1; NZ_MTGA01000029.1.
DR   AlphaFoldDB; Q49V12; -.
DR   SMR; Q49V12; -.
DR   STRING; 342451.SSP2253; -.
DR   EnsemblBacteria; BAE19398; BAE19398; SSP2253.
DR   KEGG; ssp:SSP2253; -.
DR   PATRIC; fig|342451.11.peg.2244; -.
DR   eggNOG; COG1197; Bacteria.
DR   HOGENOM; CLU_005122_1_3_9; -.
DR   OMA; WAPPCRE; -.
DR   OrthoDB; 234717at2; -.
DR   Proteomes; UP000006371; 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:0016787; F:hydrolase 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; 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; 4.
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..1170
FT                   /note="Transcription-repair-coupling factor"
FT                   /id="PRO_0000282679"
FT   DOMAIN          635..796
FT                   /note="Helicase ATP-binding"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
FT   DOMAIN          810..971
FT                   /note="Helicase C-terminal"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
FT   MOTIF           749..752
FT                   /note="DEEQ box"
FT   BINDING         648..655
FT                   /ligand="ATP"
FT                   /ligand_id="ChEBI:CHEBI:30616"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00969"
SQ   SEQUENCE   1170 AA;  134754 MW;  F1FD0CDED51E18E9 CRC64;
     MKSIITEYIN EDKRYQELNE VFGKENVLVT GLSGAAKATI IAEKYLNSEQ QLLVVTNNLY
     QADKLESDLL QFVEDSEIYK YPMQDIMTEE FSTQSPQFMS ERVRTLTALA QEERGLFIVP
     LNGLKKWLTP VDMWKSHQLT LNVGDDIDID EFLNKLVNMG YRRESVVSHI GEFSLRGGIV
     DIYPLIGKPV RIEFFDTEVD SIRDFDVESQ RSEGNIEHVD ITTASDYIIT EDVLKHTKHK
     LKQAYEDTRP KIEKSVRNEL KETYESFQLF EAEMFDHQVL RRLVAFMYEQ PATIMDYFKE
     DAIIAVDEYN RIKETETTLV TEIDEFMQNL IESGKGFIDQ SFLQYEGFEN LLKPFAVTYF
     TLFTATMPVQ LNEIIKFSCK PVQQFYGQYD IMRSEFQRFI QNDYTIVVLA ETETKKERIQ
     SMLNEMHIPT FIDTPSRRNE GGSAIITEGS LSEGFELPYM QLVVVTEREL FKSKQKKKPK
     QHKTLTNAEK IKSYQDLKVG DYVVHVHHGV GRYLGVETLE VGGVHKDYIK LQYKGTDQLF
     VPVDQMDQVQ KYVASEDKSP KLNKLGGTEW KKTKAKVQQS VEDMADELIE LYKAREMSVG
     YKFGPDTAEQ NDFEIDFPYE LTPDQSKSIE EIKQDMEIER PMDRLLCGDV GYGKTEVAVR
     AAFKAVMEGK QVAFLVPTTI LAQQHYETLI ERMQDFPIEV QLISRFRTTK EVKETKEGLK
     SGFVDIVVGT HKLLGKDIQY KDLGLLIVDE EQRFGVRHKE RIKSLKNNVD VLTLTATPIP
     RTLHMSMLGV RDLSVIETPP ENRFPVQTYV LEQNTNFIKE ALERELSRDG QVFYLYNKVQ
     SIYEKREQLQ MLMPDANIGV AHGQMNERDL EETMLSFINH EYDIIVTTTI IETGVDVPNA
     NTLIIEDADR FGLSQLYQLR GRVGRSSRIG YAYFLHPTNK VLSETAEDRL QAIKEFTELG
     SGFKIAMRDL NIRGAGNLLG KQQHGFIDSV GFDLYSQMLE EAVNEKRGIK AEKQDAPEIE
     IELNIDAYLP AEYIPNEQSK IEIYKKLRKI ESETQLMDVK DELIDRFNDY PIEVERLLEM
     MEIKVHALHA GVTLIKDVGK QVEVYLSEKG TTDINGETLF KQTQPLGRTM KVGVQEGKMK
     VTLNKTGNWL DSLKFLTKSL EESMVITDEI
 
 
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