Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100771
Name   oriT_pJJ1887-5 in_silico
Organism   Escherichia coli JJ1887
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP014320 (39631..39919 [+], 289 nt)
oriT length   289 nt
IRs (inverted repeats)      224..231, 234..241 n  (GCAAAAAC..GTTTTTGC)
Location of nic site      250..251
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 289 nt

>oriT_pJJ1887-5
CGCACCGCTAGCAGCGCCCCTGGCGGTATCCTATAAAAAACACACCGCGCCGCCAGCAGCGCCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGGTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAAGAGAAACTAATTTTTCATAACTCTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACTACCAACCTGTTGAGCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   843 GenBank   WP_061856951
Name   TraI_pJJ1887-5 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191800.52 Da        Isoelectric Point: 5.8954

>WP_061856951.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMGIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLRLQGSVDKDVFTRLLEGRLPDGADLSHMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIKMVGWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHALDELSVRALSRDIMKQNRVTIHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVTSVSEDAMTVVVPGRAEPASLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIAGVSKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSIWTVTAVSGDSVTLSDGQQTREIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRAVTSERETALPESVLREPQREREAVREVVRENLLQERLQQMERDIVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

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

(575-626)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 13933..40481

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AX202_RS25615 (AX202_25610) 13299..13526 + 228 WP_039023146 toxin-antitoxin system antitoxin VapB -
AX202_RS25620 (AX202_25615) 13526..13924 + 399 WP_039023147 type II toxin-antitoxin system VapC family toxin -
AX202_RS25625 (AX202_25620) 13933..16131 - 2199 WP_061856952 type IV conjugative transfer system coupling protein TraD virb4
AX202_RS25630 (AX202_25625) 16384..17115 - 732 WP_000850422 conjugal transfer complement resistance protein TraT -
AX202_RS25635 (AX202_25630) 17147..17644 - 498 WP_000605862 entry exclusion protein -
AX202_RS25640 (AX202_25635) 17663..20482 - 2820 WP_039023149 conjugal transfer mating-pair stabilization protein TraG traG
AX202_RS25645 (AX202_25640) 20479..21852 - 1374 WP_039023150 conjugal transfer pilus assembly protein TraH traH
AX202_RS25650 (AX202_25645) 21852..22214 - 363 WP_071550055 P-type conjugative transfer protein TrbJ -
AX202_RS25655 (AX202_25650) 22144..22689 - 546 WP_039052470 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AX202_RS25660 (AX202_25655) 22676..22960 - 285 WP_000624110 type-F conjugative transfer system pilin chaperone TraQ -
AX202_RS25665 (AX202_25660) 23079..23426 - 348 WP_001287894 conjugal transfer protein TrbA -
AX202_RS25670 (AX202_25665) 23442..24185 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
AX202_RS25675 (AX202_25670) 24178..24435 - 258 WP_039023152 conjugal transfer protein TrbE -
AX202_RS25680 (AX202_25675) 24462..26324 - 1863 WP_224053115 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AX202_RS25685 (AX202_25680) 26560..26940 - 381 WP_039052469 hypothetical protein -
AX202_RS25690 (AX202_25685) 26937..27575 - 639 WP_039052468 type-F conjugative transfer system pilin assembly protein TrbC trbC
AX202_RS25695 (AX202_25690) 27584..28576 - 993 WP_000830835 conjugal transfer pilus assembly protein TraU traU
AX202_RS25700 (AX202_25695) 28573..29205 - 633 WP_039052467 type-F conjugative transfer system protein TraW traW
AX202_RS25705 (AX202_25700) 29202..29588 - 387 WP_000099693 type-F conjugative transfer system protein TrbI -
AX202_RS25710 (AX202_25705) 29585..32212 - 2628 WP_001064265 type IV secretion system protein TraC virb4
AX202_RS28735 32372..32593 - 222 WP_001278685 conjugal transfer protein TraR -
AX202_RS25715 (AX202_25710) 32728..33243 - 516 WP_039052466 type IV conjugative transfer system lipoprotein TraV traV
AX202_RS25720 (AX202_25715) 33240..33491 - 252 WP_039052465 conjugal transfer protein TrbG -
AX202_RS25725 (AX202_25720) 33484..33804 - 321 WP_001057302 conjugal transfer protein TrbD virb4
AX202_RS25730 (AX202_25725) 33791..34351 - 561 WP_039052464 conjugal transfer pilus-stabilizing protein TraP -
AX202_RS25735 (AX202_25730) 34341..35792 - 1452 WP_039052463 F-type conjugal transfer pilus assembly protein TraB traB
AX202_RS25740 (AX202_25735) 35792..36520 - 729 WP_039052462 type-F conjugative transfer system secretin TraK traK
AX202_RS25745 (AX202_25740) 36507..37073 - 567 WP_039052461 type IV conjugative transfer system protein TraE traE
AX202_RS25750 (AX202_25745) 37095..37406 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
AX202_RS25755 (AX202_25750) 37411..37773 - 363 WP_039052460 type IV conjugative transfer system pilin TraA -
AX202_RS25760 (AX202_25755) 37806..38201 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
AX202_RS25765 (AX202_25760) 38300..38989 - 690 WP_061856953 conjugal transfer transcriptional regulator TraJ -
AX202_RS25770 (AX202_25765) 39176..39559 - 384 WP_061856954 conjugal transfer relaxosome DNA-binding protein TraM -
AX202_RS25775 (AX202_25770) 39891..40481 + 591 WP_280138902 transglycosylase SLT domain-containing protein virB1
AX202_RS25780 (AX202_25775) 40777..41598 - 822 WP_061856956 DUF932 domain-containing protein -
AX202_RS25785 (AX202_25780) 41717..42004 - 288 WP_061856957 hypothetical protein -
AX202_RS31355 42029..42235 - 207 Protein_49 single-stranded DNA-binding protein -
AX202_RS30630 42305..42633 + 329 Protein_50 hypothetical protein -
AX202_RS29580 42624..42755 + 132 Protein_51 type II toxin-antitoxin system RelE/ParE family toxin -
AX202_RS28750 43705..44322 + 618 Protein_53 transposase family protein -

Host bacterium

ID   1231 GenBank   NZ_CP014320
Plasmid name   pJJ1887-5 Incompatibility group   IncFIC
Plasmid size   130603 bp Coordinate of oriT [Strand]   39631..39919 [+]
Host baterium   Escherichia coli JJ1887

Cargo genes

Drug resistance gene   tetracyline resistance; tunicamycin resistance
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -