LOCUS       WQZ29906.1               999 aa    PRT              BCT 29-DEC-2023
DEFINITION  Helicobacter pylori transcription-repair coupling factor protein.
ACCESSION   CP079244-1415
PROTEIN_ID  WQZ29906.1
SOURCE      Helicobacter pylori
  ORGANISM  Helicobacter pylori
            Bacteria; Campylobacterota; Epsilonproteobacteria;
            Campylobacterales; Helicobacteraceae; Helicobacter.
REFERENCE   1  (bases 1 to 1570870)
  AUTHORS   Thorell,K., Munoz-Ramirez,Z.Y., Wang,D., Sandoval-Motta,S., Boscolo
            Agostini,R., Ghirotto,S., Torres,R.C., Falush,D., Camargo,M.C. and
            Rabkin,C.S.
  CONSRTM   HpGP Research Network
  TITLE     The Helicobacter pylori Genome Project: insights into H. pylori
            population structure from analysis of a worldwide collection of
            complete genomes
  JOURNAL   Nat Commun 14 (1), 8184 (2023)
   PUBMED   38081806
  REMARK    Publication Status: Online-Only
REFERENCE   2  (bases 1 to 1570870)
  AUTHORS   Camargo,M.C. and Rabkin,C.S.
  TITLE     Direct Submission
  JOURNAL   Submitted (15-JUL-2021) IIB, National Cancer Institute, 9609
            Medical Center Dr., Rm. 6E110, Bethesda, MD 20892, USA
COMMENT     The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            
            ##Genome-Assembly-Data-START##
            Assembly Method        :: HGAP v. 4
            Assembly Name          :: HpGP-TWN-021
            Genome Representation  :: Full
            Expected Final Version :: Yes
            Genome Coverage        :: 2661x
            Sequencing Technology  :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI
            Annotation Date                   :: 07/16/2021 08:12:09
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 5.2
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA;
                                                 repeat_region
            Genes (total)                     :: 1,497
            CDSs (total)                      :: 1,452
            Genes (coding)                    :: 1,391
            CDSs (with protein)               :: 1,391
            Genes (RNA)                       :: 45
            rRNAs                             :: 2, 2, 2 (5S, 16S, 23S)
            complete rRNAs                    :: 2, 2, 2 (5S, 16S, 23S)
            tRNAs                             :: 36
            ncRNAs                            :: 3
            Pseudo Genes (total)              :: 61
            CDSs (without protein)            :: 61
            Pseudo Genes (ambiguous residues) :: 0 of 61
            Pseudo Genes (frameshifted)       :: 44 of 61
            Pseudo Genes (incomplete)         :: 11 of 61
            Pseudo Genes (internal stop)      :: 18 of 61
            Pseudo Genes (multiple problems)  :: 12 of 61
            ##Genome-Annotation-Data-END##
FEATURES             Qualifiers
     source          /organism="Helicobacter pylori"
                     /mol_type="genomic DNA"
                     /strain="HpGP-TWN-021"
                     /isolation_source="Biopsy"
                     /host="Homo sapiens"
                     /db_xref="taxon:210"
                     /geo_loc_name="Taiwan"
                     /lat_lon="23.30 N 121.00 E"
                     /collected_by="Maria Camargo and Charles Rabkins"
     protein         /gene="mfd"
                     /locus_tag="E5P95_07300"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000616266.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /transl_table=11
BEGIN
        1 MIQSSLYRAL NKGFDYQILA CKDFKESELA KEVISYFKPN TKAILFPEFR AKKNDDLRSF
       61 FEEFLQLLGG LREFYQALEN KQEAIIIAPI SALLHPLPKK ELLESFKITL LEKYNLKDLK
      121 DKLFYYGYEI LDLVEVEGEA SFRGDIVDIY APNSKAYRLS FFDMECESIK EFDPTTQMSL
      181 KEDLLEIEIP PTLFSLNEQS YKDLKTKVEQ SPLNSFSKDL TSFGLWFLGE KANDLLQAYK
      241 SVISPRALEE IQELASLNEL DNERFKFLKV LENPQGYEDL EIHAHALESF IALHSNHKIT
      301 LLAPNKTILD NAISALEKSH IECVIAPFVL NFKTPDGIFI SLNSFERKKK RQKSKLALNE
      361 LNAGEWVVHD DYGVGVFSQL VQHSVLGSKR DFLEIAYFGE DKLLLPVENL HLIARYVAQS
      421 DSVPTKDRLG KGSFLKLKAK VKNKLLEIAS KIIELAAERN LILGKKMDTH LAELEIFKSH
      481 AGFEYTSDQE KAIAEISKDL SSKRVMDRLL SGDVGFGKTE VAMHAIFCAF LNGFQSALVV
      541 PTTLLAHQHF ETLRARFENF GVKVARLDRY ASEKNKLLKA VELGLIDVLV GTHAIFCAKF
      601 KNLGLVVVDE EHKFGVKQKE ALKELSKSVH FLSMSATPIP RTLNMALSQI KGISSLKIPP
      661 TDRKPSRTFL KEKNDELLKE IIHRELRRNG QIFYIHNHIA SISKVKTKLE DLIPKLKIAI
      721 LHSQISANES EEIMLEFAKG NYQVLLCTSI VESGIHLPNA NTIIIDNAQN FGLADLHQLR
      781 GRVGRGKKEG FCYFLIEDQK SLNEQALKRL LALEKNSYLG SGESIAYHDL EIRGGGNLLG
      841 QDQSGHIKNI GYALYTRMLE DAIYELSGGK KRLEKSVEIQ LSVSAFLNPE LIASDSLRLD
      901 LYRRLSLCEN TDEVGQIHEE IEDRFGKIDD LSAQFLQIIT LKILANQLGI IKLSNFNQNI
      961 TITYNDEKKE SLKAPSKDDN DILETLLKHL RAQISLKRH
//