LOCUS       NZ_MYFN02000025         5754 bp    DNA     linear   CON 31-JAN-2025
DEFINITION  Shinella sumterensis strain MEC087 scaffold_24, whole genome
            shotgun sequence.
ACCESSION   NZ_MYFN02000025 REGION: 10359..16112
VERSION     NZ_MYFN02000025.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN06458377
            Assembly: GCF_004514425.2
KEYWORDS    WGS; RefSeq.
SOURCE      Shinella sumterensis
  ORGANISM  Shinella sumterensis
            Bacteria; Pseudomonadati; Pseudomonadota; Alphaproteobacteria;
            Hyphomicrobiales; Rhizobiaceae; Shinella.
REFERENCE   1  (bases 1 to 5754)
  AUTHORS   Arya,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (06-JAN-2020) Engineering, University of Georgia, 220
            Riverbend Rd, Athens, GA 30602, USA
REFERENCE   2  (bases 1 to 5754)
  AUTHORS   Arya,A.S.
  TITLE     Direct Submission
  JOURNAL   Submitted (12-MAR-2017) Microbiology, University of Georgia, 120
            Cedar St. Dept. of Microbiology, Athens, GA 30602, USA
COMMENT     REFSEQ INFORMATION: The reference sequence is identical to
            MYFN02000025.1.
            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        :: A5-miseq pipeline v. 20160825
            Genome Representation  :: Full
            Expected Final Version :: No
            Genome Coverage        :: 237x
            Sequencing Technology  :: Illumina MiSeq
            ##Genome-Assembly-Data-END##
            
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Name                   :: GCF_004514425.2-RS_2025_01_31
            Annotation Date                   :: 01/31/2025 04:07:06
            Annotation Pipeline               :: NCBI Prokaryotic Genome
                                                 Annotation Pipeline (PGAP)
            Annotation Method                 :: Best-placed reference protein
                                                 set; GeneMarkS-2+
            Annotation Software revision      :: 6.9
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 5,381
            CDSs (total)                      :: 5,322
            Genes (coding)                    :: 5,233
            CDSs (with protein)               :: 5,233
            Genes (RNA)                       :: 59
            rRNAs                             :: 1, 3 (16S, 23S)
            complete rRNAs                    :: 1, 1 (16S, 23S)
            partial rRNAs                     :: 2 (23S)
            tRNAs                             :: 51
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 89
            CDSs (without protein)            :: 89
            Pseudo Genes (ambiguous residues) :: 0 of 89
            Pseudo Genes (frameshifted)       :: 27 of 89
            Pseudo Genes (incomplete)         :: 67 of 89
            Pseudo Genes (internal stop)      :: 5 of 89
            Pseudo Genes (multiple problems)  :: 9 of 89
            ##Genome-Annotation-Data-END##
FEATURES             Location/Qualifiers
     source          1..5754
                     /organism="Shinella sumterensis"
                     /mol_type="genomic DNA"
                     /submitter_seqid="scaffold_24"
                     /strain="MEC087"
                     /isolation_source="campfire topsoil"
                     /type_material="type strain of Shinella sumterensis"
                     /db_xref="taxon:1967501"
                     /geo_loc_name="USA: Nantahala National Forest, NC"
                     /collection_date="2010"
     gene            complement(1..936)
                     /locus_tag="B5M41_RS25470"
                     /old_locus_tag="B5M41_025360"
     CDS             complement(1..936)
                     /locus_tag="B5M41_RS25470"
                     /old_locus_tag="B5M41_025360"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_003592171.1"
                     /GO_function="GO:0140359 - ABC-type transporter activity
                     [Evidence IEA]; GO:0042626 - ATPase-coupled transmembrane
                     transporter activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="ABC transporter permease"
                     /protein_id="WP_134653263.1"
                     /translation="MANAFFANWRQNIIYIGFVVIFIVFAMTLADKGFLNPNNLLNIV
                     RQTAMIAVMAIAMTFVLSAGEIDLSVGAVAGLSTVTVAMAIAVGGPIAGVGAGIATGL
                     AVGMFNGWLTTRVGIPSFLTTLAMMGIAKGVAMWISATAAVPILSPGYSWLFGGGNLG
                     PVPVLLLWMAVLGGIGHIVLRRSGFGRRVLATGGGETAARYSGIDTKSVKFKVLVLSS
                     LAAALAGMLYAGRLQSGRFQLGEGDELSVIAAAVLGGTSLFGGKGTVIGTIVGALMIG
                     LINNGLILMGLEFSQQLIARGGIIILAVALSQKRS"
     gene            complement(929..2503)
                     /locus_tag="B5M41_RS25475"
                     /old_locus_tag="B5M41_025365"
     CDS             complement(929..2503)
                     /locus_tag="B5M41_RS25475"
                     /old_locus_tag="B5M41_025365"
                     /EC_number="7.5.2.-"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007596235.1"
                     /GO_function="GO:0140359 - ABC-type transporter activity
                     [Evidence IEA]; GO:0005524 - ATP binding [Evidence IEA];
                     GO:0016887 - ATP hydrolysis activity [Evidence IEA];
                     GO:0042626 - ATPase-coupled transmembrane transporter
                     activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sugar ABC transporter ATP-binding protein"
                     /protein_id="WP_134653265.1"
                     /translation="MSVSAAAVRMTGISKTFGGVHALDDVSFEVMPGEVHALLGGNGA
                     GKSTILKVLNGVHRPDKGTIEVGGVPLTTHTPEASRAAGIAMNYQEMSLVPTLTVAQN
                     IFLTREYRVGTGLIDDREAERRAADLFALLDVFVDPKALVGDLGAGQKQLTEIAKAIS
                     QDAKVLVLDEPSTALAVSDVERLFVFLHKLKAKGVAIIYVSHRMDEIARIADRATILR
                     DGRHVITAPLSELPIDTMIEHIVGRRSKGLSDIERSAAVRGDVLLELKNVSGRHKPEN
                     ISLTLHRGEVLGLAGLLGSGRSSLARVIAGIDPVLKGEIRIKGRAVVIRKPGDAIAAG
                     VALVPEARATQGIIPAHSVASNMILAVIDRLSAAGLVDTKAANDLTDAQIERLRVKTA
                     SRDHAVSTLSGGNQQKVVIGKWLATNPDILILDEPTAGIDIGSKSEIIRLVRELAAAG
                     KGIIMISSELSELLTACDRILVMTEGRVHQDLPREALEDPSVPADDLAHRLQAAEQRL
                     QIEIQKALALQEVSHG"
     gene            complement(2500..3666)
                     /locus_tag="B5M41_RS25480"
                     /old_locus_tag="B5M41_025370"
     CDS             complement(2500..3666)
                     /locus_tag="B5M41_RS25480"
                     /old_locus_tag="B5M41_025370"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_007596237.1"
                     /GO_function="GO:0003824 - catalytic activity [Evidence
                     IEA]; GO:0000166 - nucleotide binding [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="Gfo/Idh/MocA family protein"
                     /protein_id="WP_230640358.1"
                     /translation="MTKVMNVAMIGGGFMGKAHAMAYAAMPMFFWPAPAIPHRKVVVD
                     VTDGMAEEARRRYGFEEASSDWRAVVNRPDVDVVDICTPNNVHAEIAIAAAKAGKHII
                     CEKPLARTVEEARAMHDAVKAAGVIHMVAFNYRRTPAVALAKTYIEEGRIGRILNFRG
                     TYLQDWSADPDSPLSWRFQKKIAGSGSVGDIATHVVDLAHYLVGPIAEVNALTTTYNK
                     TRPLQQSGVDKLGAAEKAKDAERGEVDVDDEVVSMLKFEGGAIGSLEATRNAYGRNNF
                     ITLEIHGTKGSIHFNYERRDELQVMFADDPADSRGFRTVYTGPAHPYGNGLWPIPGLG
                     IGYSETKIVECYDFFSAIAKNRQPSPNFEDGLKTELVADALIRSGETGLWEKVG"
     gene            complement(3777..4898)
                     /locus_tag="B5M41_RS25485"
                     /old_locus_tag="B5M41_025375"
     CDS             complement(3777..4898)
                     /locus_tag="B5M41_RS25485"
                     /old_locus_tag="B5M41_025375"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012555756.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="substrate-binding domain-containing protein"
                     /protein_id="WP_134711101.1"
                     /translation="MISRRSLLGTAAVLALAFAFAAPAVADPDTALAELQKTVLSKGP
                     SGESPSLASDVTLTDEELAKIKTMNATAAIVMHYGGNDWSRAQINGLQTQFAAMGIKV
                     LAVTDAGFKPEKQVSDLETIMAQKPGIIVSIPTDPTATAAAYKAAAEAGTKLVFMDNV
                     PTGFVAGKDYVSVVSADNYGNGVAAAHLMAKALNGEGDIGLVFHAADFFVTKQRYDGF
                     KATIASDYPNIKIVAEQGIGGPDFSGDAEKAASAILTSNPNVKGIWAVWDVPAEGVIS
                     AARVAGRDDLVITTVDLGENVAISMAQGGFVKGLGAQRPYDAGVVEAKLAGYALLGKQ
                     APAFVALPALPVTRETLLDGWKAVYSAEATGNIKSSLGQ"
     gene            complement(4942..5754)
                     /locus_tag="B5M41_RS25490"
                     /old_locus_tag="B5M41_025380"
     CDS             complement(4942..5754)
                     /locus_tag="B5M41_RS25490"
                     /old_locus_tag="B5M41_025380"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_012555757.1"
                     /GO_function="GO:0003824 - catalytic activity [Evidence
                     IEA]; GO:0016853 - isomerase activity [Evidence IEA]"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="sugar phosphate isomerase/epimerase family
                     protein"
                     /protein_id="WP_134653383.1"
                     /translation="MSEFKLAYHANCWGSLGGDAVGVTSITNLAYRTFGDMRRAFADI
                     TAAGYEGVELFDGNLLDFSAAEMRGLLDDNGLTLVATYAGGNFIFDDILPEELARVVR
                     AADRAAELGAPHLVVGGGAKRFDGIREVDYHKLAAALDRVKEIAEARGLAAHYHPHLS
                     TIVEGPAEVRKIFALTGIGFCPDTAHLAAADGDPAALIREHAGRISYVHLKGLQKEPF
                     AFTPIDRGDVPTDGIVTALREVGFAGWICAELDSWPDPLEGAKASMAYLKSA"
ORIGIN      
        1 tcagctcctc ttctggctga gggcgacggc gaggatgatg atgccgccgc gggcaatgag
       61 ctgctggctg aattcgaggc ccatgaggat aaggccattg ttgatgaggc cgatcatcag
      121 tgcgccgacg atggtcccga taacggtccc cttgccgccg aaaaggctcg tgccgccgag
      181 caccgccgcg gcgatcactg agagttcgtc gccctcgcca agctgaaagc ggccggattg
      241 cagacgcccg gcataaagca tgccggcaag ggcggcagcc agcgacgaaa ggacaagcac
      301 cttgaacttg acgctcttcg tatcgatgcc ggagtaccgt gccgccgtct cgccgccacc
      361 agtcgccagc acccgccggc cgaagcccga gcggcgcaag acgatatggc cgatgccgcc
      421 gagaaccgcc atccagagaa gcagcaccgg caccgggccg agattgccgc cgccgaagag
      481 ccaggaatag cccggcgaca gaataggcac ggcggccgtc gccgatatcc acatggcgac
      541 gcccttggcg atgcccatca tggcaagcgt ggtgaggaag gagggaatgc cgacgcgggt
      601 ggtgagccag ccgttgaaca tgccgaccgc aagccccgtg gcgatgccgg caccgacacc
      661 ggcgatcggc ccgcccaccg caatcgccat cgcgacggtg acggtcgaaa ggcccgcgac
      721 cgcaccgacc gaaagatcga tctcgccagc cgaaagcacg aaggtcattg cgatcgccat
      781 gaccgcaatc atcgccgtct gccgcacgat gttcagcagg ttgttggggt tgaggaaccc
      841 cttgtcggcc agcgtcatgg caaagacgat gaaaataacg acgaagccga tgtagatgat
      901 gttctggcgc cagttggcga agaaggcatt agccatggga tacctcctga agcgcaaggg
      961 ccttctggat ttcgatctgg agccgctgtt cggcggcctg gagacggtga gcaaggtcgt
     1021 cggcgggcac ggagggatct tccagcgcct cgcgcggcag atcctgatgc acacgcccct
     1081 cggtcatgac gaggatgcgg tcgcaggcgg tcagaagctc ggagagttcg gacgagatca
     1141 tgatgatgcc cttgccggcg gccgcgagtt cacgcaccag gcggataatc tccgacttcg
     1201 aaccgatatc gatgcccgcg gtaggctcgt cgagaatgag gatgtcggga ttggtggcga
     1261 gccatttgcc gatgaccacc ttctgctggt tgccgcccga aagcgtcgag acggcatgat
     1321 cgcggctcgc cgtctttacg cgcaggcgct cgatttgcgc atcggtcagg tcgttcgccg
     1381 ccttcgtatc gacgagaccg gccgcggaaa gccggtcgat gacggcgagg atcatgttgg
     1441 aggcaaccga atgggcgggg atgatgccct gggtcgcgcg tgcttccgga accagtgcga
     1501 cacctgcggc gatcgcgtcc cccggcttgc ggatcacgac cgcgcggccc ttgatgcgga
     1561 tttcgccctt gaggaccggg tcgatgccgg cgatcacccg cgcgagcgac gagcggccgg
     1621 aaccgagaag gccagcgagc cccagcacct caccgcgatg cagcgtcagg gaaatgttct
     1681 ccggcttatg gcgaccgctg acattcttca gttccagaag cacatcgccc cgcacggccg
     1741 cgctgcgctc gatgtccgac agccctttcg agcgccggcc gacgatatgc tcgatcatcg
     1801 tatcgatcgg caattcgctg agcggagcgg tgatgacgtg acggccgtcg cgcaggatcg
     1861 ttgcccggtc ggcaatgcgg gcgatttcgt ccatgcggtg gctgacatag atgatcgcta
     1921 cccccttcgc cttcagcttg tgcagaaaga cgaagagccg ctcgacatcg gaaacggcga
     1981 gcgccgtcga cggctcgtcc agcaccaaca ccttagcatc ctgcgagatc gccttggcga
     2041 tttccgtcaa ctgtttctgc ccggcgccga gatcgccgac gagagctttc ggatcgacga
     2101 atacatcgag cagcgcaaaa aggtccgccg cgcgccgctc ggcctcccgg tcgtcgataa
     2161 gccccgtgcc gacgcggtat tcacgcgtca ggaagatgtt ctgggcaacc gtcagcgtcg
     2221 ggacaaggct catttcctgg taattcatgg cgatgccggc ggcgcgcgac gcctccggcg
     2281 tatgcgtcgt caggggcacg ccaccgacct cgattgtgcc cttgtcaggg cgatgcaccc
     2341 cgttcagcac cttgaggatc gtcgacttgc ccgcgccgtt gccgcccagc agcgcatgga
     2401 cctcgccggg catgacctcg aaggacacgt catccagcgc atgcacccct ccaaaggtct
     2461 tggatatgcc ggtcatgcgg acggcagcgg cgctcacact catcccacct tctcccacag
     2521 gccggtttcg ccggaacgaa tgagggcgtc ggcgacgagt tccgtcttga ggccgtcctc
     2581 gaagttcggg ctgggttgcc ggttcttcgc aatggcggag aagaaatcgt agcactcgac
     2641 gatctttgtc tccgaatagc cgatgccgag accgggaatg ggccagagac cgttgccgta
     2701 gggatgggcc gggccggtat agacagtgcg gaaaccgcgg gaatccgccg ggtcgtcggc
     2761 aaacatcacc tgaagctcgt cgcggcgctc gtagttgaag tggatcgagc ccttggtgcc
     2821 gtgaatttcc agcgtgatga agttgttgcg gccataggcg ttacgggtcg cttcgagact
     2881 gccgatcgca ccaccctcga atttcagcat cgagacgact tcgtcgtcga catcgacctc
     2941 gccacgctcc gcatccttgg ctttttccgc cgcaccgagc ttgtcgacgc cgctttgctg
     3001 aagaggacgt gtcttgttgt aggtagtggt cagcgcgttc acttcggcga tcgggccgac
     3061 gagatagtgg gcaagatcga ccacatgggt ggcgatgtcg ccgaccgagc cggagccggc
     3121 gatcttcttc tggaaacgcc aggaaagggg ggaatccggg tcagcggacc agtcctgcag
     3181 gtaggtgccg cggaaattga gaatacggcc gatgcggcct tcctcgatat atgtcttcgc
     3241 aagcgccacg gcgggggtcc ggcgatagtt gaaggcgacc atatggatga cgccggcagc
     3301 cttgaccgcg tcatgcatcg ccctcgcctc ttcgacggtg cgggcgagcg gcttttcgca
     3361 gatgatgtgc ttgccggcct tagccgccgc gatggcgatc tcggcatgca cgttgttcgg
     3421 cgtgcagata tcgacgacat cgacatccgg ccgattgacg accgcgcgcc agtccgagga
     3481 cgcctcctcg aaaccgtagc gacgacgcgc ttcctccgcc atgccgtcgg tcacgtcgac
     3541 gacgaccttg cggtgcggaa tggccggtgc gggccagaag aacatcggca tcgcggcata
     3601 ggccattgca tgcgccttgc ccatgaagcc gccgccaatc atggcgacgt tcatcacttt
     3661 ggtcatcggt tttctcctga aaggggtcgg ctgctgcgag ccgcgttcca tctgcgggcc
     3721 aaggccggct catgtcatgc ggcgcggggc acgctgcttg ccccgcgcct catcactcac
     3781 tgcccgaggc ttgacttgat gttgcccgtc gcctcggcag aatagacggc cttccagccg
     3841 tcgagcagcg tctcgcgcgt caccggcaga gcgggcagcg cgacgaaggc gggcgcctgc
     3901 ttgccgagca gcgcatagcc ggcaagcttg gcttcgacca caccggcgtc gtaaggccgc
     3961 tgggcaccga gccccttgac gaaaccgccc tgggccatcg agatcgccac gttctcgccg
     4021 agatcgaccg tggtaatgac aagatcgtca cggccggcaa cccgcgccgc cgagatcacg
     4081 ccttcggccg gcacgtccca gaccgcccat atacccttga cgttcgggtt cgaggtcagg
     4141 atggcggatg ccgccttttc cgcgtcaccc gagaagtccg ggccgccgat accctgctcg
     4201 gccacgatct tgatattcgg atagtccgac gcgatcgtcg ccttgaagcc atcgtagcgc
     4261 tgcttggtga cgaagaaatc ggcagcatgg aagaccagtc cgatatcgcc ttcgccattc
     4321 agcgccttgg ccatgagatg tgccgcagcg acgccgttgc catagttgtc agccgaaacc
     4381 acggatacat aatccttccc ggccacaaaa ccggtcggca cgttatccat gaaaacaagc
     4441 ttggtgccgg cctccgcagc cgccttgtaa gctgcggcgg tagccgtcgg atcagtcggg
     4501 atcgaaacga tgatgcccgg cttctgcgcc atgatcgtct cgaggtcaga tacctgcttt
     4561 tcaggcttga agccggcgtc ggtcaccgca agaaccttga tgcccatggc ggcgaactgc
     4621 gtctgcaagc cgttgatctg agcccgcgac cagtcgttac cgccgtagtg catgacgatg
     4681 gcggccgtcg cgttcatggt cttgatcttg gccagctcct catcggtgag cgtgacgtcc
     4741 gaggccagcg atggagattc gcctgagggc ccttttgaaa gaacggtctt ctgaagctcc
     4801 gcaagcgcgg tatccggatc ggcgacggcc ggtgcggcaa aggcaaatgc gagcgccagc
     4861 acggcggctg tgcccaaaag gctccgtctt gaaatcataa ctttctcctc ccgaaagtgg
     4921 ggcttggccc cggtgcggcc gtcaggccga tttgagatag gccatgctgg ccttcgcccc
     4981 ctccagcgga tcgggccagc tatcgagttc ggcacagatc cacccggcga agccgacctc
     5041 ccggagcgcg gtgacgatgc cgtccgtcgg cacgtcgccg cggtcgatgg gcgtgaaggc
     5101 gaagggctcc ttctgcaagc ccttgagatg tacgtaggaa atgcggcccg catgctcgcg
     5161 gatcagcgcc gcggggtcgc cgtctgcggc agcgagatgg gcggtatccg ggcagaagcc
     5221 gatgccggtg agcgcgaaga tcttgcgcac ctcggccggc ccttcgacga tcgtcgaaag
     5281 atgcggatga taatgggcgg caaggccgcg cgcctcggcg atttccttca cgcggtcaag
     5341 agcggcggcg agcttgtgat agtccacctc gcggatgccg tcgaagcgct tcgccccgcc
     5401 gccgacgacg agatgcggcg cgccgagctc ggcagcgcga tccgccgcgc ggacaacgcg
     5461 cgccagctcc tccggcagga tatcgtcgaa gatgaagttg ccgccggcat aggtggcgac
     5521 cagcgtcagg ccgttgtcgt caagcagccc ccgcatctcg gcggcgctga aatccagcag
     5581 attgccgtcg aacagttcga caccttcgta accggccgcc gtgatatctg caaaggcgcg
     5641 acgcatgtcg ccgaaggtcc gataggcaag gttggtgatc gacgtaacgc caacggcatc
     5701 cccgccgagg ctgccccagc aattcgcatg ataggcgagc ttgaactccg acat
//
