Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100647
Name   oriT_p1303_109 in_silico
Organism   Escherichia coli 1303
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP009167 (68629..69090 [-], 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_p1303_109
AAGAAGAGAACCCCTAGCAGCGCCCCTAGGGGCATACTATAAAAAAACGCACGGCGCTGCTAGGGGCGGCCCTAATATATCCAAATGTTTTTCATGAAAATTGTCAGCACTGACCCTAACAAGGGTCGTCATAGGGTCGCTATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAAATTAAAATACATTATCTAGAACATAAACTAATGATTTAAAAAACAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCATGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   719 GenBank   WP_041124242
Name   TraI_p1303_109 insolico UniProt ID   A0A0E1M617
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192209.18 Da        Isoelectric Point: 6.0541

>WP_041124242.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGRNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVAANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTIHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAWLHTPAQQAIHLALPVVESKNLAFSMVDLLTEVKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTLDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-627)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 68233..94476

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
EC1303_RS24635 (EC1303_109p00650) 64231..64664 + 434 Protein_55 conjugation system SOS inhibitor PsiB -
EC1303_RS24640 (EC1303_109p00660) 64661..65423 + 763 Protein_56 plasmid SOS inhibition protein A -
EC1303_RS29805 (EC1303_109p00670) 65597..65746 + 150 Protein_57 DUF5431 family protein -
EC1303_RS24650 (EC1303_109p00680) 65688..65813 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
EC1303_RS29360 (EC1303_109p00690) 66114..66410 - 297 Protein_59 hypothetical protein -
EC1303_RS29810 66480..66686 + 207 WP_000547963 hypothetical protein -
EC1303_RS24665 (EC1303_109p00700) 66711..66998 + 288 WP_000107542 hypothetical protein -
EC1303_RS24670 (EC1303_109p00710) 67117..67938 + 822 WP_001234474 DUF932 domain-containing protein -
EC1303_RS24675 (EC1303_109p00720) 68233..68835 - 603 WP_000243701 transglycosylase SLT domain-containing protein virB1
EC1303_RS24680 (EC1303_109p00730) 69157..69540 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
EC1303_RS24685 (EC1303_109p00740) 69730..70416 + 687 WP_000332492 PAS domain-containing protein -
EC1303_RS24690 (EC1303_109p00750) 70510..70737 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
EC1303_RS24695 (EC1303_109p00760) 70771..71136 + 366 WP_000340270 type IV conjugative transfer system pilin TraA -
EC1303_RS24700 (EC1303_109p00770) 71151..71462 + 312 WP_000012126 type IV conjugative transfer system protein TraL traL
EC1303_RS24705 (EC1303_109p00780) 71484..72050 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
EC1303_RS24710 (EC1303_109p00790) 72037..72765 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
EC1303_RS24715 (EC1303_109p00800) 72765..74192 + 1428 WP_000146673 F-type conjugal transfer pilus assembly protein TraB traB
EC1303_RS24720 (EC1303_109p00810) 74182..74772 + 591 WP_000002779 conjugal transfer pilus-stabilizing protein TraP -
EC1303_RS24725 (EC1303_109p00820) 74759..75079 + 321 WP_001057287 conjugal transfer protein TrbD virb4
EC1303_RS24730 (EC1303_109p00830) 75072..75323 + 252 WP_001038342 conjugal transfer protein TrbG -
EC1303_RS24735 (EC1303_109p00840) 75320..75835 + 516 WP_000809838 type IV conjugative transfer system lipoprotein TraV traV
EC1303_RS27790 (EC1303_109p00850) 75970..76191 + 222 WP_001278689 conjugal transfer protein TraR -
EC1303_RS24745 (EC1303_109p00860) 76351..78978 + 2628 WP_041124239 type IV secretion system protein TraC virb4
EC1303_RS24750 (EC1303_109p00870) 78975..79361 + 387 WP_032082946 type-F conjugative transfer system protein TrbI -
EC1303_RS24755 (EC1303_109p00880) 79358..79990 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
EC1303_RS24760 (EC1303_109p00890) 79987..80979 + 993 WP_041124240 conjugal transfer pilus assembly protein TraU traU
EC1303_RS24765 (EC1303_109p00900) 80988..81626 + 639 WP_000777695 type-F conjugative transfer system pilin assembly protein TrbC trbC
EC1303_RS24770 (EC1303_109p00910) 81623..83431 + 1809 WP_000821840 type-F conjugative transfer system mating-pair stabilization protein TraN traN
EC1303_RS24775 (EC1303_109p00920) 83458..83715 + 258 WP_000864318 conjugal transfer protein TrbE -
EC1303_RS24780 (EC1303_109p00930) 83708..84451 + 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
EC1303_RS24785 (EC1303_109p00940) 84467..84814 + 348 WP_032341883 conjugal transfer protein TrbA -
EC1303_RS27795 (EC1303_109p00950) 84816..85091 - 276 WP_001513501 hypothetical protein -
EC1303_RS24790 (EC1303_109p00960) 85172..85456 + 285 WP_000624103 type-F conjugative transfer system pilin chaperone TraQ -
EC1303_RS24795 (EC1303_109p00970) 85443..85988 + 546 WP_000059833 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
EC1303_RS24800 (EC1303_109p00980) 85918..86259 + 342 WP_001406994 P-type conjugative transfer protein TrbJ -
EC1303_RS24805 (EC1303_109p00990) 86246..86638 + 393 WP_001208952 F-type conjugal transfer protein TrbF -
EC1303_RS24810 (EC1303_109p01000) 86625..87998 + 1374 WP_000944319 conjugal transfer pilus assembly protein TraH traH
EC1303_RS24815 (EC1303_109p01010) 87995..90820 + 2826 WP_041124241 conjugal transfer mating-pair stabilization protein TraG traG
EC1303_RS24820 (EC1303_109p01020) 90817..91326 + 510 WP_000628105 conjugal transfer entry exclusion protein TraS -
EC1303_RS24825 (EC1303_109p01030) 91340..92071 + 732 WP_024187508 conjugal transfer complement resistance protein TraT -
EC1303_RS24830 (EC1303_109p01040) 92323..94476 + 2154 WP_001603683 type IV conjugative transfer system coupling protein TraD virb4
EC1303_RS24835 94485..94883 - 399 WP_000911317 type II toxin-antitoxin system VapC family toxin -
EC1303_RS24840 94883..95110 - 228 WP_000450532 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   1107 GenBank   NZ_CP009167
Plasmid name   p1303_109 Incompatibility group   IncFIB
Plasmid size   108501 bp Coordinate of oriT [Strand]   68629..69090 [-]
Host baterium   Escherichia coli 1303

Cargo genes

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