Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100750
Name   oriT_p2009C-3133-2 in_silico
Organism   Escherichia coli strain 2009C-3133
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP013026 (38763..39224 [+], 462 nt)
oriT length   462 nt
IRs (inverted repeats)      142..151, 154..163  (ATAGGGTCGT..ACGACCCTAT)
 231..238, 241..248  (GCAAAAAC..GTTTTTGC)
Location of nic site      257..258
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 462 nt

>oriT_p2009C-3133-2
AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGTCATACTATAAAAAAACGCACGGCGCTGCTAGGGGCGGCCCTAATATATCCAAATGTTTTTCATAAAATTTGTCAGTACTGACCCTAACAAGGGTCGCCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGCTAATGATTCAAAAAGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   822 GenBank   WP_060565186
Name   TraI_p2009C-3133-2 insolico UniProt ID   A0A0P0T0S7
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192318.04 Da        Isoelectric Point: 5.9386

>WP_060565186.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMAEWMQT
LKETGFDIRAYRDAADQRADLRTQTPRPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDTGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKTGEESVAQVSGVREQAILTQAIRSELKTQDVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVTERVTAQSNSLTLRNAQGETRVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAELASLPVADSPFTALKL
ESGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTSFTELGGEIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEMLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSTARQLQDVAAGRAVLRQAGLARGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQEGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGLERERAVTSEREAALPESVLREPQREREAVREVVRENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(575-626)

DNA helicase TraI (TraI_C)

(1434-1557)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 13403..39620

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MJ49_RS26605 (MJ49_26570) 13403..15574 - 2172 WP_060565188 type IV conjugative transfer system coupling protein TraD virb4
MJ49_RS26610 (MJ49_26575) 15827..16558 - 732 WP_000850422 conjugal transfer complement resistance protein TraT -
MJ49_RS26615 (MJ49_26580) 16590..17093 - 504 WP_060565200 surface exclusion protein -
MJ49_RS26620 (MJ49_26585) 17108..19930 - 2823 WP_054622909 conjugal transfer mating-pair stabilization protein TraG traG
MJ49_RS26625 (MJ49_26590) 19927..21300 - 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
MJ49_RS26630 (MJ49_26595) 21300..21662 - 363 WP_023181029 P-type conjugative transfer protein TrbJ -
MJ49_RS26635 (MJ49_26600) 21592..22137 - 546 WP_000052614 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MJ49_RS26640 (MJ49_26605) 22124..22408 - 285 WP_023181030 type-F conjugative transfer system pilin chaperone TraQ -
MJ49_RS26650 (MJ49_26615) 22807..23148 - 342 WP_023181031 conjugal transfer protein TrbA -
MJ49_RS26655 (MJ49_26620) 23162..23905 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
MJ49_RS26660 (MJ49_26625) 23898..24155 - 258 WP_000864325 conjugal transfer protein TrbE -
MJ49_RS26665 (MJ49_26630) 24182..25990 - 1809 WP_060565190 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MJ49_RS26670 (MJ49_26635) 25987..26625 - 639 WP_000777692 type-F conjugative transfer system pilin assembly protein TrbC trbC
MJ49_RS26675 (MJ49_26640) 26634..27626 - 993 WP_001712363 conjugal transfer pilus assembly protein TraU traU
MJ49_RS26680 (MJ49_26645) 27623..28255 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
MJ49_RS26685 (MJ49_26650) 28252..28638 - 387 WP_000214096 type-F conjugative transfer system protein TrbI -
MJ49_RS26690 (MJ49_26655) 28635..31265 - 2631 WP_044869719 type IV secretion system protein TraC virb4
MJ49_RS30085 31658..31837 - 180 WP_071887283 conjugal transfer protein TraR -
MJ49_RS33230 32014..32199 - 186 WP_001444126 type IV conjugative transfer system lipoprotein TraV traV
MJ49_RS26695 (MJ49_26660) 32132..32530 - 399 WP_236927495 type IV conjugative transfer system lipoprotein TraV traV
MJ49_RS30090 32527..32779 - 253 Protein_37 conjugal transfer protein TrbG -
MJ49_RS31965 32772..33098 - 327 Protein_38 conjugal transfer protein TrbD -
MJ49_RS26700 (MJ49_26665) 33085..33681 - 597 WP_077870409 conjugal transfer pilus-stabilizing protein TraP -
MJ49_RS26705 (MJ49_26670) 33659..35100 - 1442 Protein_40 F-type conjugal transfer pilus assembly protein TraB -
MJ49_RS26710 (MJ49_26675) 35100..35828 - 729 WP_001230788 type-F conjugative transfer system secretin TraK traK
MJ49_RS26715 (MJ49_26680) 35815..36381 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
MJ49_RS26720 (MJ49_26685) 36403..36714 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
MJ49_RS26725 (MJ49_26690) 36719..37081 - 363 WP_000340279 type IV conjugative transfer system pilin TraA -
MJ49_RS26730 (MJ49_26695) 37115..37342 - 228 WP_001254386 conjugal transfer relaxosome protein TraY -
MJ49_RS26735 (MJ49_26700) 37436..38122 - 687 WP_000332484 PAS domain-containing protein -
MJ49_RS26740 (MJ49_26705) 38313..38696 - 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
MJ49_RS26745 (MJ49_26710) 38973..39620 + 648 WP_000614934 transglycosylase SLT domain-containing protein virB1
MJ49_RS26750 (MJ49_26715) 39917..40738 - 822 WP_021573168 DUF932 domain-containing protein -
MJ49_RS26755 (MJ49_26720) 40855..41142 - 288 WP_000107538 hypothetical protein -
MJ49_RS33235 41443..41604 + 162 Protein_51 hypothetical protein -
MJ49_RS33240 41614..41844 - 231 WP_001426396 hypothetical protein -
MJ49_RS26760 (MJ49_26725) 42064..42189 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
MJ49_RS33245 42131..42280 - 150 Protein_54 plasmid maintenance protein Mok -
MJ49_RS26770 (MJ49_26735) 42459..43221 - 763 Protein_55 plasmid SOS inhibition protein A -
MJ49_RS26775 (MJ49_26740) 43218..43652 - 435 WP_000845930 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1210 GenBank   NZ_CP013026
Plasmid name   p2009C-3133-2 Incompatibility group   IncFII
Plasmid size   63800 bp Coordinate of oriT [Strand]   38763..39224 [+]
Host baterium   Escherichia coli strain 2009C-3133

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -