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NCBI Reference Sequence: NZ_RRVT01000027.1
FASTA Graphics
LOCUS NZ_RRVT01000027 36129 bp DNA linear CON 03-JUL-2024 DEFINITION Escherichia coli strain UMB1285 NODE_27_length_36129_cov_20.667157, whole genome shotgun sequence. ACCESSION NZ_RRVT01000027 NZ_RRVT01000000 VERSION NZ_RRVT01000027.1 DBLINK BioProject: PRJNA224116 BioSample: SAMN09665190 Assembly: GCF_003886635.1 KEYWORDS WGS; RefSeq. SOURCE Escherichia coli ORGANISM Escherichia coli Bacteria; Pseudomonadati; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia. REFERENCE 1 (bases 1 to 36129) AUTHORS Garretto,A., Miller-Ensminger,T., Wolfe,A.J. and Putonti,C. TITLE E. coli isolates of the female bladder JOURNAL Unpublished REFERENCE 2 (bases 1 to 36129) AUTHORS Garretto,A., Miller-Ensminger,T., Wolfe,A.J. and Putonti,C. TITLE Direct Submission JOURNAL Submitted (12-NOV-2018) Biology, Loyola University Chicago, 1032 W Sheridan Rd., Chicago, IL 60660, USA COMMENT REFSEQ INFORMATION: The reference sequence is identical to RRVT01000027.1. 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 :: SPAdes v. 3.11.1 Genome Representation :: Full Expected Final Version :: Yes Genome Coverage :: 55.71x Sequencing Technology :: Illumina MiSeq ##Genome-Assembly-Data-END## ##Genome-Annotation-Data-START## Annotation Provider :: NCBI RefSeq Annotation Name :: GCF_003886635.1-RS_2024_07_03 Annotation Date :: 07/03/2024 01:24:01 Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline (PGAP) Annotation Method :: Best-placed reference protein set; GeneMarkS-2+ Annotation Software revision :: 6.7 Features Annotated :: Gene; CDS; rRNA; tRNA; ncRNA Genes (total) :: 4,797 CDSs (total) :: 4,701 Genes (coding) :: 4,537 CDSs (with protein) :: 4,537 Genes (RNA) :: 96 rRNAs :: 7, 4, 4 (5S, 16S, 23S) complete rRNAs :: 6 (5S) partial rRNAs :: 1, 4, 4 (5S, 16S, 23S) tRNAs :: 76 ncRNAs :: 5 Pseudo Genes (total) :: 164 CDSs (without protein) :: 164 Pseudo Genes (ambiguous residues) :: 0 of 164 Pseudo Genes (frameshifted) :: 66 of 164 Pseudo Genes (incomplete) :: 118 of 164 Pseudo Genes (internal stop) :: 28 of 164 Pseudo Genes (multiple problems) :: 39 of 164 Pseudo Genes (short protein) :: 1 of 164 ##Genome-Annotation-Data-END## FEATURES Location/Qualifiers source 1..36129 /organism="Escherichia coli" /mol_type="genomic DNA" /submitter_seqid="NODE_27_length_36129_cov_20.667157" /strain="UMB1285" /isolation_source="urine" /host="Homo sapiens" /db_xref="taxon:562" /geo_loc_name="USA: Maywood, IL" gene complement(<1..674) /gene="kdpE" /locus_tag="DU308_RS22890" /old_locus_tag="DU308_22890" CDS complement(<1..674) /gene="kdpE" /locus_tag="DU308_RS22890" /old_locus_tag="DU308_22890" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415222.1" /GO_function="GO:0003677 - DNA binding [Evidence IEA]" /GO_process="GO:0000160 - phosphorelay signal transduction system [Evidence IEA]; GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="two-component system response regulator KdpE" /protein_id="WP_000186082.1" /translation="MTNVLIVEDEQAIRRFLRTALEGDGMRVFEAETLQRGLLEAATR KPDLIILDLGLPDGDGIEFIRDLRQWSAVPVIVLSARSEESDKIAALDAGADDYLSKP FGIGELQARLRVALRRHSATTTPDPLVKFSDVTVDLAARVIHRGEEEVHLTPIEFRLL AVLLNNAGKVLTQRQLLNQVWGPNAVEHSHYLRIYMGHLRQKLEQDPARPRHFITETG IGYRFMP" gene complement(671..3355) /gene="kdpD" /locus_tag="DU308_RS22895" /old_locus_tag="DU308_22895" CDS complement(671..3355) /gene="kdpD" /locus_tag="DU308_RS22895" /old_locus_tag="DU308_22895" /EC_number="2.7.13.3" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415223.1" /GO_function="GO:0000155 - phosphorelay sensor kinase activity [Evidence IEA]" /GO_process="GO:0000160 - phosphorelay signal transduction system [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="two-component system sensor histidine kinase KdpD" /protein_id="WP_001311503.1" /translation="MNNEPLRPDPDRLLEQTAAPHRGKLKVFFGACAGVGKTWAMLAE AQRLRAQGLDIVVGVVETHGRKDTAAMLEGLAVLPLKRQAYRGRHISEFDLDAALARR PALILMDELAHSNAPGSRHPKRWQDIEELLEAGIDVFTTVNVQHLESLNDVVSGVTGI QVRETVPDPFFDAADDVVLVDLPPDDLRQRLKEGKVYIAGQAERAIEHFFRKGNLIAL RELALRRTADRVDEQMRAWRGHPGEEKVWHTRDAILLCIGHNTGSEKLVRAAARLASR LGSVWHAVYVETPALHRLPEKKRRAILSALRLAQELGAETATLSDPAEEKAVVRYARE HNLGKIILGRPASRRWWRRETFADRLARIAPDLDQVLVALDEPPARTINNAPDSRSFK DKWRVQIQGCVVAAALCAVITLIAMQWLMAFDAANLVMLYLLGVVVVALFYGRWPSVV ATVINVVSFDLFFIAPRGTLAVSDVQYLLTFAVMLTVGLVIGNLTAGVRYQARVARYR EQRTRHLYEMSKALAVGRSSQDIAATSEQFIASTFHARSQVLLPDDNGKLQPLTHPQG MTPWDDAIAQWSFDKGLPAGAGTDTLPGVPYQILPLKSGEKTYGLVVVEPGNLRQLMI PEQQRLLETFTLLVANALERLTLTASEEQARMASEREQIRNALLAALSHDLRTPLTVL FGQAEILTLDLASEGSPHARQASEIRQHVLNTTRLVNNLLDMARIQSGGFNLKKEWLT LEEVVGSALQMLEPGLSSPINLSLPEPLTLIHVDGPLFERVLINLLENAVKYAGAQAE IGINAHVEGENLQLDVWDNGPGLPPGQEQTIFDKFARGNKESAVPGVGLGLAICRAIV DVHGGTITAFNRPEGGACFRVTLPQQTAPELEEFHEDM" gene complement(3348..3920) /gene="kdpC" /locus_tag="DU308_RS22900" /old_locus_tag="DU308_22900" CDS complement(3348..3920) /gene="kdpC" /locus_tag="DU308_RS22900" /old_locus_tag="DU308_22900" /EC_number="7.2.2.6" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415224.1" /GO_component="GO:0031004 - potassium ion-transporting ATPase complex [Evidence IEA]" /GO_function="GO:0008556 - P-type potassium transmembrane transporter activity [Evidence IEA]" /GO_process="GO:0006813 - potassium ion transport [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="K(+)-transporting ATPase subunit C" /protein_id="WP_001295876.1" /translation="MSGLRPALSTFLFLLLITGGVYPLLTTALGQWWFPWQANGSLIR EGDTVRGSALIGQNFTGNGYFHGRPSATAEMPYNPQASGGSNLAVSNPVLDKQIAARV AALRAANPDASTSVPVELVTASASGLDNNITPQAAAWQIPRVAKARNLSVEQLTQLIA KYSQQPLVNYIGQPVVNVVELNLALDKLDE" gene complement(3929..5977) /gene="kdpB" /locus_tag="DU308_RS22905" /old_locus_tag="DU308_22905" CDS complement(3929..5977) /gene="kdpB" /locus_tag="DU308_RS22905" /old_locus_tag="DU308_22905" /EC_number="7.2.2.6" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308752.1" /GO_component="GO:0016020 - membrane [Evidence IEA]; GO:0031004 - potassium ion-transporting ATPase complex [Evidence IEA]" /GO_function="GO:0005524 - ATP binding [Evidence IEA]; GO:0008556 - P-type potassium transmembrane transporter activity [Evidence IEA]" /GO_process="GO:0006813 - potassium ion transport [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="potassium-transporting ATPase subunit KdpB" /protein_id="WP_000088002.1" /translation="MSRKQLALFEPTLVVQALKEAVKKLNPQAQWRNPVMFIVWIGSL LTTCISIAMASGVMPGNALFSAAISGWLWVTVLFANFAEALAEGRSKAQANSLKGVKK TAFARKLREPKYGAVADKVPADQLRKGDIVLVEAGDIIPCDGEVIEGGASVDESAITG ESAPVIRESGGDFASVTGGTRILSDWLVIECSVNPGETFLDRMIAMVEGAQRRKTPNE IALTILLIALTIVFLLATATLWPFSAWGGNAVSVTVLVALLVCLIPTTIGGLLSAIGV AGMSRMLGANVIATSGRAVEAAGDVDVLLLDKTGTITLGNRQASEFIPAQGVEEKALA DAAQLASLADETPEGRSIVILAKQRFNLRERDVQSLHATFVPFTAQSRMSGINIDNRM IRKGSVDAIRRHVEANGGHFPADVDQKVDQVARQGATPLVVVEGSRVLGVIALKDIVK GGIKERFAQLRKMGIKTVMITGDNRLTAAAIAAEAGVDDFLAEATPEAKLALIRQYQA EGRLVAMTGDGTNDAPALAQADVAVAMNSGTQAAKEAGNMVDLDSNPTKLIEVVHIGK QMLMTRGSLTTFSIANDVAKYFAIIPAAFAATYPQLNALNIMRLHSPDSAILSAVIFN ALIIVFLIPLALKGVSYKPLTASAMLRRNLWIYGLGGLLVPFIGIKVIDLLLTVCGLV " gene complement(6000..7673) /gene="kdpA" /locus_tag="DU308_RS22910" /old_locus_tag="DU308_22910" CDS complement(6000..7673) /gene="kdpA" /locus_tag="DU308_RS22910" /old_locus_tag="DU308_22910" /EC_number="7.2.2.6" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415226.1" /GO_component="GO:0031004 - potassium ion-transporting ATPase complex [Evidence IEA]" /GO_function="GO:0008556 - P-type potassium transmembrane transporter activity [Evidence IEA]" /GO_process="GO:0006813 - potassium ion transport [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="potassium-transporting ATPase subunit KdpA" /protein_id="WP_001524300.1" /translation="MAAQGFLLIATFLLVLMVLARPLGSGLARLINDIPLPGTTGVER VLFSALGVSDREMNWKQYLSAILGLNILGLAVLFFMLLGQHYLPLNPQQLPGLSWDLA LNTAVSFITNTNWQSYSGETTLSYFSQMAGLTVQNFLSAASGIAVIFALIRAFTRQSM STLGNAWVDLLRITLWVLAPVALLIALFFIQQGALQNFLPYQAVTTIEGSQQLLPMGP VASQEAIKMLGTNGGGFFNANSSHPFENPTALTNFVQMLAIFLIPTALCFAFGEVAGD RRQGHMLLWAMSVIFVICVGVVMWAEVQGNPHLLALGADSSINMEGKESRFGVLVSSL FAVVTTAASCGAVIAMHDSFTALGGMVPMWLMQIGEVVFGGVGSGLYGMMLFVLLAVF IAGLMIGRTPEYLGKKIDVREMKLTALAILVTPTLVLMGAALAMMTDAGRSAMLNPGP HGFSEVLYAVSSAANNNGSAFAGLSANSPFWNCLLALCMFVGRFGVIIPVMAIAGSLV SKKSQPASSGTLPTHGPLFVGLLIGTVLLVGALTFIPALALGPVAEYLS" gene complement(7673..7762) /gene="kdpF" /locus_tag="DU308_RS22915" /old_locus_tag="DU308_22915" CDS complement(7673..7762) /gene="kdpF" /locus_tag="DU308_RS22915" /old_locus_tag="DU308_22915" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_588443.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="K(+)-transporting ATPase subunit F" /protein_id="WP_001272653.1" /translation="MSAGVITGVLLVFLLLGYLVYALINAEAF" gene 8075..8281 /gene="ybfA" /locus_tag="DU308_RS22920" /old_locus_tag="DU308_22920" CDS 8075..8281 /gene="ybfA" /locus_tag="DU308_RS22920" /old_locus_tag="DU308_22920" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308755.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="YbfA family protein" /protein_id="WP_000424788.1" /translation="MELYKEYPAWLIFLRRTCAVAAGVLALPFMLFWKDRARFYSYLH RVWSKTSDKPVWMDQAEKATGDFY" gene 8382..8891 /gene="ybgA" /locus_tag="DU308_RS22925" /old_locus_tag="DU308_22925" CDS 8382..8891 /gene="ybgA" /locus_tag="DU308_RS22925" /old_locus_tag="DU308_22925" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415235.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="YbgA family protein" /protein_id="WP_001075783.1" /translation="MNQQLFDDSTLIRIFALHELHNLKDRGLTRGALLDYHSRYKLVF LAHSQPEYRKLGPFVADIHRWQSLDDYYNQYRQRVIVLLSHPANRRDHTNVLMHVQGY FRPHIDSTERQQLAALIDSYRRGEQPLLAPLMRIKHYMALYPDAWLSGQRYFELWPRV INLRHAGVL" gene 8888..10306 /gene="phrB" /locus_tag="DU308_RS22930" /old_locus_tag="DU308_22930" CDS 8888..10306 /gene="phrB" /locus_tag="DU308_RS22930" /old_locus_tag="DU308_22930" /EC_number="4.1.99.3" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001740284.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="deoxyribodipyrimidine photo-lyase" /protein_id="WP_000207134.1" /translation="MTTHLVWFRQDLRLHDNLALAAACRNSSARVLALYIATPRQWAA HNVSPRQAELINTQLNALQNALAEKGIPLLFREVDDFAASVEIVKQVCAENRVTHLFY NYQYEVNERARDVEVERALRNVVCEGFDDSVILPPGAVMTGNHEMYKVFTPFKNAWLK RLREGMPECVAAPKVRSSGSIDPAPSITLNYPCQSFDTAHFPVEEKAAIAQLRQFCQN GAGEYEQQRDFPAVEGTSRLSASLATGGLSPRQCLHRLLAEQPQALDGGAGSVWLSEL IWREFYRHLMTYYPSLCKHRPFIAWTDRVQWQSNPAHLKAWQEGKTGYPIVDAAMRQL NSTGWMHNRLRMITASFLVKDLLIDWREGERYFMSQLIDGDLAANNGGWQWAASTGTD AAPYFRIFNPTTQGEKFDHEGEFIRQWLPELRDVPGKAVHEPWKWAEKTGVTLDYPQP IVDHKEARLRTLAAYEEARKGA" gene complement(10349..11830) /gene="dtpD" /locus_tag="DU308_RS22935" /old_locus_tag="DU308_22935" CDS complement(10349..11830) /gene="dtpD" /locus_tag="DU308_RS22935" /old_locus_tag="DU308_22935" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_706523.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="dipeptide permease DtpD" /protein_id="WP_001032722.1" /translation="MNKHASQPRAIYYVVALQIWEYFSFYGMRALLILYLTNQLKYSD NHAYELFSAYCSLVYVTPILGGFLADKVLGNRMAVMLGALLMAIGHVVLGASEIHPSF LYLSLAIIVCGYGLFKSNVSCLLGELYEPTDPRRDGGFSLMYAAGNVGSIIAPIACGF AQEEYSWAMGFGLAAVGMIAGLVIFLCGNRHFTHTRGVNKKVLRATNFLLPNWGWLLV LLVATPALITVLFWKEWSVYALIVATIIGLGVLAKIYRKAENQKQRKELGLIVTLTFF SMLFWAFAQQGGSSISLYIDRFVNRDMFGYTVPTAMFQSINAFAVMLCGVFLAWVVKE SVAGNRTVRIWGKFALGLGLMSAGFCILTLSARWSAMYGHSSLPLMVLGLAVMGFAEL FIDPVAMSQITRIEIPGVTGVLTGIYMLLSGAIANYLAGVIADQTSQASFDASGAINY SINAYIEVFDQITWGALACVGLVLMIWLYQALKFRNRALALES" gene 12101..12844 /gene="ybgI" /locus_tag="DU308_RS22940" /old_locus_tag="DU308_22940" CDS 12101..12844 /gene="ybgI" /locus_tag="DU308_RS22940" /old_locus_tag="DU308_22940" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_000798886.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="radiation resistance protein YbgI" /protein_id="WP_000798871.1" /translation="MKNTELEQLINEKLNSAAISDYAPNGLQVEGKETVQKIVTGVTA SQALLDEAVRLGADAVIVHHGYFWKGESPVIRGMKRNRLKTLLANDINLYGWHLPLDA HPELGNNAQLAALLGITVMGEIEPLVPWGELTMPVPGLELASWIEARLGRKPLWCGDT GPEVVQRVAWCTGGGQSFIDSAARFGVDAFITGEVSEQTIHSAREQGLHFYAAGHHAT ERGGIRALSEWLNENTDLDVTFIDIPNPA" gene 12867..13523 /gene="pxpB" /locus_tag="DU308_RS22945" /old_locus_tag="DU308_22945" CDS 12867..13523 /gene="pxpB" /locus_tag="DU308_RS22945" /old_locus_tag="DU308_22945" /EC_number="3.5.2.9" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308763.1" /GO_function="GO:0017168 - 5-oxoprolinase (ATP-hydrolyzing) activity [Evidence IEA]" /GO_process="GO:0005975 - carbohydrate metabolic process [Evidence IEA]; GO:0008152 - metabolic process [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="5-oxoprolinase subunit PxpB" /protein_id="WP_001524301.1" /translation="MQRARCYLIGETAVVLELEPPVTLASQKRIWRLAQRLVDMPNVV EAIPGMNNITVILRNPESLALDAIERLQRWWEESEALEPESRFIEIPVVYGGAAGPDL AVVAAHCGLSEKQVVELHSSVEYVVWFLGFQPGFPYLGSLPEQLHTPRRAEPRLHVPA GSVGIGGPQTGVYPLATPGGWQLIGHTSLSLFDPARDEPILLRPGDSVRFVPQKEGVC " gene 13517..14449 /gene="pxpC" /locus_tag="DU308_RS22950" /old_locus_tag="DU308_22950" CDS 13517..14449 /gene="pxpC" /locus_tag="DU308_RS22950" /old_locus_tag="DU308_22950" /EC_number="3.5.2.9" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308764.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="5-oxoprolinase subunit PxpC" /protein_id="WP_001524302.1" /translation="MLKIIRAGMYTTVQDGGRHGFRQSGISHCGALDMPALRIANLLV GNDANAPALEITLGQLTVEFETDGWFALTGAGCEARLDDNAVWTGWRLPMRAGQRLTL KRPQHGMRSYLAVAGGIDVPPVMGSCSTDLKVGIGGLEGRLLRDGDRLPIGKAKRDFM EAQGVKQLLWGNRIRALPGPEYHEFDRASQDAFWRSPWQLSPQSNRMGYRLQGQILKR TTDRELLSHGLLPGVVQVPHNGQPIVLMNDAQTTGGYPRIACIIEADMYHLAQIPLGQ PIHFVQCSLEEALKARQDQQRYFEQLAWRLHNEN" gene 14439..15173 /gene="pxpA" /locus_tag="DU308_RS22955" /old_locus_tag="DU308_22955" CDS 14439..15173 /gene="pxpA" /locus_tag="DU308_RS22955" /old_locus_tag="DU308_22955" /EC_number="3.5.2.9" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_706520.1" /GO_function="GO:0003824 - catalytic activity [Evidence IEA]" /GO_process="GO:0005975 - carbohydrate metabolic process [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="5-oxoprolinase subunit PxpA" /protein_id="WP_000687120.1" /translation="MKIDLNADLGEGCASDAELLTLVSSANIACGFHAGDAQTMQACV REAIKNGVAIGAHPSFPDRENFGRSAMQLPPETIFAQTLYQIGALAAITRAQGGVMCH VKPHGMLYNQAAKEAQLADAIARAVYACDPALILVGLAGSELIRAGERYGLVTREEVF ADRGYQADGSLVPRSQPGALIENEEQALAQTLEMVQHGRVKSITGEWAMVTAQTVCLH GDGEHALAFARRLRATFAEKGIVVAA" gene 15209..16000 /gene="nei" /locus_tag="DU308_RS22960" /old_locus_tag="DU308_22960" CDS 15209..16000 /gene="nei" /locus_tag="DU308_RS22960" /old_locus_tag="DU308_22960" /EC_number="4.2.99.18" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308766.1" /GO_function="GO:0140078 - class I DNA-(apurinic or apyrimidinic site) endonuclease activity [Evidence IEA]; GO:0003677 - DNA binding [Evidence IEA]; GO:0000703 - oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity [Evidence IEA]; GO:0008270 - zinc ion binding [Evidence IEA]" /GO_process="GO:0006281 - DNA repair [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="endonuclease VIII" /protein_id="WP_001114006.1" /translation="MPEGPEIRRAADNLEAAIKGKPLTDVWFAFPQLKSYQSRLIGQH VTHVETRGKALLTHFSNDLTLYSHNQLYGVWRVVDTGEEPQTTRVLRVKLQTADKTIL LYSASDIEMLTPEQLTTHPFLQRVGPDVLDPNLTPEVVKERLLSPRFRNRQFAGLLLD QAFLAGLGNYLRVEILWQVGLTGNHKAKDLNAAQLDALAHALLDIPRLSYATRGQVDE NKYHGALFRFKVFHRDGEPCERCGGIIEKTTLSSRPFYWCPGCQH" gene complement(15997..17043) /gene="abrB" /locus_tag="DU308_RS22965" /old_locus_tag="DU308_22965" CDS complement(15997..17043) /gene="abrB" /locus_tag="DU308_RS22965" /old_locus_tag="DU308_22965" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415243.4" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="AbrB family transcriptional regulator" /protein_id="WP_001524305.1" /translation="MPVLQWGMLCVLSLLLSIGFLALHLPAALLLGPMIAGIIFSMRG VTLQLPRSAFLAAQAILGCMIAQNLTGSILTTLAVNWPIVLAILLVTLLSSAIVGWLL VRYSSLPGNTGAWGSSPGGAAAMVAMAQDYGADIRLVAFMQYLRVLFVAGAAVLVTRM MLGDNAEAVNQQIVWFPSVSINLLLTILLAVVAGTAGCLLRLPSGTMLIPMLAGAVLQ SGQLITIELPEWLLAMAYMAIGWRIGLGFDKQILLRALRPLPQILLSIFALLAICAGM AWGLTRFMHIDFMTAYLATSPGGLDTVAVIAAGSNADMALIMAMQTLRLFSILLTGPA IARFISTYAPKRSA" gene complement(17195..>17587) /locus_tag="DU308_RS22970" /old_locus_tag="DU308_22970" /pseudo CDS complement(17195..>17587) /locus_tag="DU308_RS22970" /old_locus_tag="DU308_22970" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415244.4" /GO_component="GO:0009289 - pilus [Evidence IEA]" /GO_process="GO:0007155 - cell adhesion [Evidence IEA]" /note="incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=1 /transl_table=11 /product="fimbrial protein" gene complement(17715..18998) /gene="gltA" /locus_tag="DU308_RS22975" /old_locus_tag="DU308_22975" CDS complement(17715..18998) /gene="gltA" /locus_tag="DU308_RS22975" /old_locus_tag="DU308_22975" /EC_number="2.3.3.16" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415248.1" /GO_component="GO:0005737 - cytoplasm [Evidence IEA]" /GO_function="GO:0004108 - citrate (Si)-synthase activity [Evidence IEA]" /GO_process="GO:0006099 - tricarboxylic acid cycle [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="citrate synthase" /protein_id="WP_000785834.1" /translation="MADTKAKLTLNGDTAVELDVLKGTLGQDVIDIRTLGSKGVFTFD PGFTSTASCESKITFIDGDEGILLHRGFPIDQLATDSNYLEVCYILLNGEKPTQEQYD EFKTTVTRHTMIHEQITRLFHAFRRDSHPMAVMCGITGALAAFYHDSLDVNNPRHREI AAFRLLSKMPTMAAMCYKYSIGQPFVYPRNDLSYAGNFLNMMFSTPCEPYEVNPILER AMDRILILHADHEQNASTSTVRTAGSSGANPFACIAAGIASLWGPAHGGANEAALKML EEISSVKHIPEFVRRAKDKNDSFRLMGFGHRVYKNYDPRATVMRETCHEVLKELGTKD DLLEVAMELENIALNDPYFIEKKLYPNVDFYSGIILKAMGIPSSMFTVIFAMARTVGW IAHWSEMHSDGMKIARPRQLYTGYEKRDFKSDIKR" gene complement(19204..19311) /locus_tag="DU308_RS22980" /old_locus_tag="DU308_22980" CDS complement(19204..19311) /locus_tag="DU308_RS22980" /old_locus_tag="DU308_22980" /inference="COORDINATES: similar to AA sequence:RefSeq:YP_009518759.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="hypothetical protein" /protein_id="WP_001305582.1" /translation="MRKSYEVGISPKINLCNSVEVLTNSFGTVISGRQV" gene 19692..20096 /gene="sdhC" /locus_tag="DU308_RS22985" /old_locus_tag="DU308_22985" /gene_synonym="cybA; dhsC" CDS 19692..20096 /gene="sdhC" /locus_tag="DU308_RS22985" /old_locus_tag="DU308_22985" /gene_synonym="cybA; dhsC" /EC_number="1.3.5.1" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_000263334.1" /GO_component="GO:0016020 - membrane [Evidence IEA]; GO:0045281 - succinate dehydrogenase complex [Evidence IEA]" /GO_function="GO:0009055 - electron transfer activity [Evidence IEA]; GO:0000104 - succinate dehydrogenase activity [Evidence IEA]" /GO_process="GO:0006099 - tricarboxylic acid cycle [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="succinate dehydrogenase cytochrome b556 subunit" /protein_id="WP_033556047.1" /translation="MWALFMIRNVKKQRPVNLDLQTIRFPVTAIASILHRVSGVITFV AVGILLWLLGTSLSSPKGFEQASAIMGSFFVKFIMWGILTALAYHVVVGIRHMMMDFG YLEETFEAGKRSAKISFVITVVLSLLAGVLVW" gene 20090..20437 /gene="sdhD" /locus_tag="DU308_RS22990" /old_locus_tag="DU308_22990" /gene_synonym="cybS; dhsD" CDS 20090..20437 /gene="sdhD" /locus_tag="DU308_RS22990" /old_locus_tag="DU308_22990" /gene_synonym="cybS; dhsD" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415250.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="succinate dehydrogenase membrane anchor subunit" /protein_id="WP_000254365.1" /translation="MVSNASALGRNGVHDFILVRATAIVLTLYIIYMVGFFATSGELT YEVWIGFFASAFTKVFTLLALFSILIHAWIGMWQVLTDYVKPLALRLMLQLVIVVALV VYVIYGFVVVWGV" gene 20437..22203 /gene="sdhA" /locus_tag="DU308_RS22995" /old_locus_tag="DU308_22995" CDS 20437..22203 /gene="sdhA" /locus_tag="DU308_RS22995" /old_locus_tag="DU308_22995" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_005122549.1" /GO_function="GO:0050660 - flavin adenine dinucleotide binding [Evidence IEA]; GO:0016627 - oxidoreductase activity, acting on the CH-CH group of donors [Evidence IEA]" /GO_process="GO:0022900 - electron transport chain [Evidence IEA]; GO:0006099 - tricarboxylic acid cycle [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="succinate dehydrogenase flavoprotein subunit" /protein_id="WP_000775540.1" /translation="MKLPVREFDAVVIGAGGAGMRAALQISQSGQTCALLSKVFPTRS HTVSAQGGITVALGNTHEDNWEWHMYDTVKGSDYIGDQDAIEYMCKTGPEAILELEHM GLPFSRLDDGRIYQRPFGGQSKNFGGEQAARTAAAADRTGHALLHTLYQQNLKNHTTI FSEWYALDLVKNQDGAVVGCTALCIETGEVVYFKARATVLATGGAGRIYQSTTNAHIN TGDGVGMAIRAGVPVQDMEMWQFHPTGIAGAGVLVTEGCRGEGGYLLNKHGERFMERY APNAKDLAGRDVVARSIMIEIREGRGCDGPWGPHAKLKLDHLGKEVLESRLPGILELS RTFAHVDPVKEPIPVIPTCHYMMGGIPTKVTGQALTVNEKGEDVVVPGLFAVGEIACV SVHGANRLGGNSLLDLVVFGRAAGLHLQESIAEQGALRDASESDVEASLDRLNRWNNN RNGEDPVAIRKALQECMQHNFSVFREGDAMAKGLEQLKVIRERLKNARLDDTSSEFNT QRVECLELDNLMETAYATAVSANFRTESRGAHSRFDFPDRDDENWLCHSLYLPESESM TRRSVNMEPKLRPAFPPKIRTY" gene 22219..22935 /gene="sdhB" /locus_tag="DU308_RS23000" /old_locus_tag="DU308_23000" CDS 22219..22935 /gene="sdhB" /locus_tag="DU308_RS23000" /old_locus_tag="DU308_23000" /EC_number="1.3.5.1" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_012133276.1" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="succinate dehydrogenase iron-sulfur subunit SdhB" /protein_id="WP_001235263.1" /translation="MRLEFSIYRYNPDVDDAPRMQDYTLEAEEGRDMMLLDALIQLKE KDPSLSFRRSCREGVCGSDGLNMNGKNGLACITPISALNQPGKKIVIRPLPGLPVIRD LVVDMGQFYAQYEKIKPYLLNNGQNPPAREHLQMPEQREKLDGLYECILCACCSTSCP SFWWNPDKFIGPAGLLAAYRFLIDSRDTETDSRLDGLSDAFSVFRCHSIMNCVSVCPK GLNPTRAIGHIKSMLLQRNA" gene 23247..26048 /gene="sucA" /locus_tag="DU308_RS23005" /old_locus_tag="DU308_23005" CDS 23247..26048 /gene="sucA" /locus_tag="DU308_RS23005" /old_locus_tag="DU308_23005" /EC_number="1.2.4.2" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308778.1" /GO_component="GO:0045252 - oxoglutarate dehydrogenase complex [Evidence IEA]" /GO_function="GO:0004591 - oxoglutarate dehydrogenase (succinyl-transferring) activity [Evidence IEA]; GO:0030976 - thiamine pyrophosphate binding [Evidence IEA]" /GO_process="GO:0006099 - tricarboxylic acid cycle [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="2-oxoglutarate dehydrogenase E1 component" /protein_id="WP_001181473.1" /translation="MQNSALKAWLDSSYLSGANQSWIEQLYEDFLTDPDSVDANWRST FQQLPGTGVKPDQFHSQTREYFRRLAKDASRYSSTISDPDTNVKQVKVLQLINAYRFR GHQHANLDPLGLWQQDKVADLDPSFHDLTEADFQETFNVGSFASGKETMKLGELLEAL KQTYCGPIGAEYMHITSTEEKRWIQQRIESGRATFNSEEKKRFLSELTAAEGLERYLG AKFPGAKRFSLEGGDALIPMLKEMIRHAGNSGTREVVLGMAHRGRLNVLVNVLGKKPQ DLFDEFAGKHKEHLGTGDVKYHMGFSSDFQTDGGLVHLALAFNPSHLEIVSPVVIGSV RARLDRLDEPSSNKVLPITIHGDAAVTGQGVVQETLNMSKARGYEVGGTVRIVINNQV GFTTSNPLDARSTPYCTDIGKMVQAPIFHVNADDPEAVAFVTRLALDFRNTFKRDVFI DLVCYRRHGHNEADEPSATQPLMYQKIKKHPTPRKIYADKLEQEKVATLEDATEMVNL YRDALDAGDCVVAEWRPMNMHSFTWSPYLNHEWDEEYPNKVEMKRLQELAKRISTVPE AVEMQSRVAKIYGDRQAMAAGEKLFDWGGAENLAYATLVDEGIPVRLSGEDSGRGTFF HRHAVIHNQSNGSTYTPLQHIHNGQGAFRVWDSVLSEEAVLAFEYGYATAEPRTLTIW EAQFGDFANGAQVVIDQFISSGEQKWGRMCGLVMLLPHGYEGQGPEHSSARLERYLQL CAEQNMQVCVPSTPAQVYHMLRRQALRGMRRPLVVMSPKSLLRHPLAVSSLEELANGT FLPAIGEIDELDPKGVKRVVMCSGKVYYDLLEQRRKNNQHDVAIVRIEQLYPFPHKAM QEVLQQFAHVKDFVWCQEEPLNQGAWYCSQHHFREVIPFGASLRYAGRPASASPAVGY MSVHQKQQQDLVNDALNVE" gene 26063..27280 /gene="odhB" /locus_tag="DU308_RS23010" /old_locus_tag="DU308_23010" CDS 26063..27280 /gene="odhB" /locus_tag="DU308_RS23010" /old_locus_tag="DU308_23010" /EC_number="2.3.1.61" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308779.1" /GO_component="GO:0045252 - oxoglutarate dehydrogenase complex [Evidence IEA]" /GO_function="GO:0004149 - dihydrolipoyllysine-residue succinyltransferase activity [Evidence IEA]" /GO_process="GO:0006099 - tricarboxylic acid cycle [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="2-oxoglutarate dehydrogenase complex dihydrolipoyllysine-residue succinyltransferase" /protein_id="WP_000099866.1" /translation="MSSVDILVPDLPESVADATVATWHKKPGDVVVRDEVLVEIETDK VVLEVPASADGILDAVLEDEGTTVTSRQILGRLREGNSAGKETSAKSEEKASTPAQRQ QASLEEQNNDALSPAIRRLLAEHNLDASAIKGTGVGGRLTREDVEKHLAKAPAKESAP AAAAPAAQPALAARSEKRVPMTRLRKRVAERLLEAKNSTAMLTTFNEVNMKPIMDLRK QYGEAFEKRHGIRLGFMSFYVKAVVEALKRYPEVNASIDGDDVVYHNYFDVSMAVSTP RGLVTPVLRDVDTLGMADIEKKIKELAVKGRDGKLTVEDLTGGNFTITNGGVFGSLMS TPIINPPQSAILGMHAIKDRPMAVNGQVEILPMMYLALSYDHRLIDGRESVGFLVTIK ELLEDPTRLLLDV" gene 27374..28540 /gene="sucC" /locus_tag="DU308_RS23015" /old_locus_tag="DU308_23015" CDS 27374..28540 /gene="sucC" /locus_tag="DU308_RS23015" /old_locus_tag="DU308_23015" /EC_number="6.2.1.5" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_012133271.1" /GO_function="GO:0005524 - ATP binding [Evidence IEA]; GO:0003824 - catalytic activity [Evidence IEA]; GO:0046872 - metal ion binding [Evidence IEA]" /GO_process="GO:0006099 - tricarboxylic acid cycle [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="ADP-forming succinate--CoA ligase subunit beta" /protein_id="WP_001048602.1" /translation="MNLHEYQAKQLFARYGLPAPVGYACTTPREAEEAASKIGAGPWV VKCQVHAGGRGKAGGVKVVNSKEDIRAFAENWLGKRLVTYQTDANGQPVNQILVEAAT DIAKELYLGAVVDRSSRRVVFMASTEGGVEIEKVAEETPHLIHKVALDPLTGPMPYQG RELAFKLGLEGKLVQQFTKIFMGLATIFLERDLALIEINPLVITKQGDLICLDGKLGA DGNALFRQPDLREMRDQSQEDPREAQAAQWELNYVALDGNIGCMVNGAGLAMGTMDIV KLHGGEPANFLDVGGGATKERVTEAFKIILSDDKVKAVLVNIFGGIVRCDLIADGIIG AVAEVGVNVPVVVRLEGNNAELGAKKLADSGLNIIAAKGLTDAAQQVVAAVEGK" gene 28540..29409 /gene="sucD" /locus_tag="DU308_RS23020" /old_locus_tag="DU308_23020" CDS 28540..29409 /gene="sucD" /locus_tag="DU308_RS23020" /old_locus_tag="DU308_23020" /EC_number="6.2.1.5" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_308781.1" /GO_function="GO:0003824 - catalytic activity [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="succinate--CoA ligase subunit alpha" /protein_id="WP_000025458.1" /translation="MSILIDKNTKVICQGFTGSQGTFHSEQAIAYGTKMVGGVTPGKG GTTHLGLPVFNTVREAVAATGATASVIYVPAPFCKDSILEAIDAGIKLIITITEGIPT LDMLTVKVKLDEAGVRMIGPNCPGVITPGECKIGIQPGHIHKPGKVGIVSRSGTLTYE AVKQTTDYGFGQSTCVGIGGDPIPGSNFIDILEMFEKDPQTEAIVMIGEIGGSAEEEA AAYIKEHVTKPVVGYIAGVTAPKGKRMGHAGAIIAGGKGTADEKFAALEAAGVKTVRS LADIGEALKTVLK" gene complement(29513..>29674) /locus_tag="DU308_RS23025" /old_locus_tag="DU308_23025" /pseudo CDS complement(29513..>29674) /locus_tag="DU308_RS23025" /old_locus_tag="DU308_23025" /inference="COORDINATES: similar to AA sequence:RefSeq:NP_415258.1" /GO_function="GO:0003677 - DNA binding [Evidence IEA]" /GO_process="GO:0006355 - regulation of DNA-templated transcription [Evidence IEA]" /note="incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=1 /transl_table=11 /product="UTRA domain-containing protein" gene <29678..31126 /gene="mngA" /locus_tag="DU308_RS23030" /old_locus_tag="DU308_23030" /pseudo CDS <29678..31126 /gene="mngA" /locus_tag="DU308_RS23030" /old_locus_tag="DU308_23030" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_001393949.1" /GO_component="GO:0016020 - membrane [Evidence IEA]" /GO_function="GO:0005351 - carbohydrate:proton symporter activity [Evidence IEA]; GO:0022877 - protein-N(PI)-phosphohistidine-fructose phosphotransferase system transporter activity [Evidence IEA]" /GO_process="GO:0009401 - phosphoenolpyruvate-dependent sugar phosphotransferase system [Evidence IEA]" /note="incomplete; partial in the middle of a contig; missing N-terminus; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=1 /transl_table=11 /product="PTS 2-O-a-mannosyl-D-glycerate transporter subunit IIABC" gene 31144..33777 /gene="mngB" /locus_tag="DU308_RS23035" /old_locus_tag="DU308_23035" CDS 31144..33777 /gene="mngB" /locus_tag="DU308_RS23035" /old_locus_tag="DU308_23035" /EC_number="3.2.1.170" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_000648959.1" /GO_function="GO:0004559 - alpha-mannosidase activity [Evidence IEA]" /GO_process="GO:0006013 - mannose metabolic process [Evidence IEA]" /note="Derived by automated computational analysis using gene prediction method: Protein Homology." /codon_start=1 /transl_table=11 /product="mannosylglycerate hydrolase" /protein_id="WP_021540177.1" /translation="MKAVSRVHITPHMHWDREWYFTTEESRILLVNNMEEILCRLEQD NEYKYYVLDGQTAILEDYFAVKPENKDRVKKLVEGGKLIIGPWYTQTDTTIVSAESIV RNLMYGMRDCLAFGEPMKIGYLPDSFGMSGQLPHIYNGFGITRTMFWRGCSERHGTDK TEFLWQSSDGSEVTAQVLPLGYAIGKYLPADENGLRKRLDSYFDVLEKASVTKEILLP NGHDQMPLQQNIFEVMEKLREIYPQRKFVMSRFEEVFEQIEAQRESLAILKGEFIDGK YMRVHRTIGSTRMDIKIAHARIENKIVNLLEPLATLAWTLGFDYHHGLLEKMWKEILK NHAHDSIGCCCSDKVHREIVARFELAEDMADNLIRFYMRKIADNMPQSDADKLVLFNL MPWPREEVINTTVRLRGSQFNLRDGRGQPVPYFIRHAREIDPGLIDRQIVHYGNYDPF MEFDIQISQIVPSMGYRTLYIEANQPGNVVTPKSKTEGILENAFWQIALNEDGSLRLV DKDSGVRYDRVFQIEEGSDDGDEYDYSPAKEEWAITSANAKPQYDIIHEAWQSRAIIR YEIAVPRNLSERRAKQCSGRVGVETVITLNHNSRRIDADINLDNQADDHRIRVLIPTP FNTDVVLADTQFGSLTRPVKDCAMNVWQQEGWKEAPVPVWNMLNYAVLQEGRNGIAVF SEGLREFEVIGEENKTFAITLLRGVGLLGKEDLLLRPGRPSGIKMPVSDSQLRGSFSC RLSLFSYIGTPVTAGVAQQARAWLTPVQCYNKIPWDAMKLNKAKFNVPESYSLLKMPP VGCLISALKKAEDRQELILRLFNPAELTSCDATVAFSRKVMTCTETMMNERFNTEKNE VLKELALFLPGQSRTFSYRIV" gene 33975..35168 /locus_tag="DU308_RS23040" /old_locus_tag="DU308_23040" /pseudo CDS 33975..35168 /locus_tag="DU308_RS23040" /old_locus_tag="DU308_23040" /inference="COORDINATES: similar to AA sequence:RefSeq:WP_016243297.1" /note="internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology." /pseudo /codon_start=1 /transl_table=11 /product="tetratricopeptide repeat protein" CONTIG join(RRVT01000027.1:1..36129) //
Whole sequence (abbreviated view) Selected region from: to:
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