Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100651
Name   oriT_pFAP1-1 in_silico
Organism   Escherichia coli FAP1
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP009579 (65062..65511 [-], 450 nt)
oriT length   450 nt
IRs (inverted repeats)      IR1: 201..215, 222..236  (ATTCATTGGTGAATC..GATTCACCTATGAAT)
 IR2: 308..315, 318..325  (GCAAAAAC..GTTTTTGC)
Location of nic site      334..335
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 450 nt

>oriT_pFAP1-1
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAAAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCTATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGAGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   723 GenBank   WP_025653537
Name   TraI_pFAP1-1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191691.26 Da        Isoelectric Point: 5.7430

>WP_025653537.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEGASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELAMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPPTLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDALEKAGELGKEQVM
VPVLNTANIRDGELRRLSTWEKNPDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQEGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVQAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(968-1156)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

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: 67502..93161

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LI75_RS24545 (LI75_24550) 63054..63341 + 288 WP_000107520 hypothetical protein -
LI75_RS24550 (LI75_24555) 63460..64281 + 822 WP_001234468 DUF932 domain-containing protein -
LI75_RS24555 (LI75_24560) 64577..65179 - 603 Protein_67 transglycosylase SLT domain-containing protein -
LI75_RS24560 (LI75_24565) 65510..65893 + 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
LI75_RS24565 (LI75_24570) 66087..66773 + 687 WP_000332500 PAS domain-containing protein -
LI75_RS24570 (LI75_24575) 66867..67094 + 228 WP_001254388 conjugal transfer relaxosome protein TraY -
LI75_RS24575 (LI75_24580) 67128..67487 + 360 WP_001098994 type IV conjugative transfer system pilin TraA -
LI75_RS24580 (LI75_24585) 67502..67813 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
LI75_RS24585 (LI75_24590) 67835..68401 + 567 WP_000399780 type IV conjugative transfer system protein TraE traE
LI75_RS24590 (LI75_24595) 68388..69116 + 729 WP_001230771 type-F conjugative transfer system secretin TraK traK
LI75_RS24595 (LI75_24600) 69116..70543 + 1428 WP_001530447 F-type conjugal transfer pilus assembly protein TraB traB
LI75_RS24600 (LI75_24605) 70533..71123 + 591 WP_000002782 conjugal transfer pilus-stabilizing protein TraP -
LI75_RS24605 (LI75_24610) 71110..71431 + 322 Protein_77 conjugal transfer protein TrbD -
LI75_RS24610 (LI75_24615) 71424..71675 + 252 WP_001061854 conjugal transfer protein TrbG -
LI75_RS24615 (LI75_24620) 71672..72188 + 517 Protein_79 type IV conjugative transfer system lipoprotein TraV -
LI75_RS28390 (LI75_24625) 72323..72544 + 222 WP_038431837 conjugal transfer protein TraR -
LI75_RS24625 (LI75_24630) 72537..73014 + 478 Protein_81 hypothetical protein -
LI75_RS31270 (LI75_24635) 73094..73311 + 218 Protein_82 hypothetical protein -
LI75_RS30270 (LI75_24640) 73339..73686 + 348 WP_000836682 hypothetical protein -
LI75_RS24640 (LI75_24645) 73812..76442 + 2631 WP_025653530 type IV secretion system protein TraC virb4
LI75_RS24645 (LI75_24650) 76439..76825 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
LI75_RS24650 (LI75_24655) 76822..77454 + 633 WP_025653531 type-F conjugative transfer system protein TraW traW
LI75_RS24655 (LI75_24660) 77451..78443 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
LI75_RS24660 (LI75_24665) 78473..78775 + 303 WP_025653532 hypothetical protein -
LI75_RS24665 (LI75_24670) 78787..79425 + 639 WP_025653533 type-F conjugative transfer system pilin assembly protein TrbC trbC
LI75_RS24670 (LI75_24675) 79422..81272 + 1851 WP_025653534 type-F conjugative transfer system mating-pair stabilization protein TraN traN
LI75_RS24675 (LI75_24680) 81299..81556 + 258 WP_000864329 conjugal transfer protein TrbE -
LI75_RS24680 (LI75_24685) 81549..82294 + 746 Protein_92 type-F conjugative transfer system pilin assembly protein TraF -
LI75_RS24685 (LI75_24690) 82308..82649 + 342 WP_000556795 conjugal transfer protein TrbA -
LI75_RS30940 82780..82965 - 186 WP_000736411 hypothetical protein -
LI75_RS24695 (LI75_24700) 83046..83330 + 285 WP_038431841 type-F conjugative transfer system pilin chaperone TraQ -
LI75_RS24700 (LI75_24705) 83317..83862 + 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
LI75_RS24705 (LI75_24710) 83792..84139 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
LI75_RS24710 (LI75_24715) 84120..84512 + 393 WP_025653535 F-type conjugal transfer protein TrbF -
LI75_RS24715 (LI75_24720) 84499..85872 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
LI75_RS24720 (LI75_24725) 85869..88691 + 2823 WP_021532807 conjugal transfer mating-pair stabilization protein TraG traG
LI75_RS24725 (LI75_24730) 88706..89209 + 504 WP_077696861 surface exclusion protein -
LI75_RS24730 (LI75_24735) 89241..89972 + 732 WP_024187483 conjugal transfer complement resistance protein TraT -
LI75_RS24735 (LI75_24740) 90175..90912 + 738 WP_021515410 hypothetical protein -
LI75_RS24740 (LI75_24745) 90963..93161 + 2199 WP_025667836 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1111 GenBank   NZ_CP009579
Plasmid name   pFAP1-1 Incompatibility group   IncFIB
Plasmid size   141804 bp Coordinate of oriT [Strand]   65062..65511 [-]
Host baterium   Escherichia coli FAP1

Cargo genes

Drug resistance gene   sitABCD, aph(6)-Id, aph(3'')-Ib, sul2, blaTEM-1B, dfrA5
Virulence gene   iucA, iucB, iucC, iutA, iroN, iroE, iroD, iroC, iroB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -