Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100313
Name   oriT_p1ESCUM in_silico
Organism   Escherichia coli UMN026
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_011749 (91036..91485 [+], 450 nt)
oriT length   450 nt
IRs (inverted repeats)      IR1: 201..215, 222..236  (ATTCATTGGTGAATC..GATTCACCAATGAAT)
 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_p1ESCUM
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAGAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   384 GenBank   YP_002405976
Name   TraI_p1ESCUM insolico UniProt ID   B7LJ26
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191759.33 Da        Isoelectric Point: 5.7433

>YP_002405976.1 conjugal transfer protein TraI (plasmid) [Escherichia coli UMN026]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
EPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

AAA domain (AAA_30)

(968-1156)

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: 62228..91970

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ECUMN_RS00345 (ECUMN_p10079) 62228..64525 - 2298 WP_000009346 type IV conjugative transfer system coupling protein TraD prgC
ECUMN_RS00350 (ECUMN_p10080) 64576..65313 - 738 WP_000199901 hypothetical protein -
ECUMN_RS00355 (ECUMN_p10081) 65516..66247 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
ECUMN_RS00360 (ECUMN_p10082) 66296..66781 - 486 WP_000605869 hypothetical protein -
ECUMN_RS00365 (ECUMN_p10083) 66797..69619 - 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
ECUMN_RS00370 (ECUMN_p10084) 69616..70989 - 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
ECUMN_RS00375 (ECUMN_p10085) 70976..71368 - 393 WP_000660700 F-type conjugal transfer protein TrbF -
ECUMN_RS00380 (ECUMN_p10086) 71349..71696 - 348 WP_001309242 P-type conjugative transfer protein TrbJ -
ECUMN_RS00385 (ECUMN_p10087) 71626..72171 - 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
ECUMN_RS00390 (ECUMN_p10088) 72158..72442 - 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
ECUMN_RS00395 72523..72858 + 336 WP_000736414 hypothetical protein -
ECUMN_RS00400 72839..73180 - 342 WP_001298557 conjugal transfer protein TrbA -
ECUMN_RS00405 (ECUMN_p10090) 73194..73937 - 744 WP_001030385 type-F conjugative transfer system pilin assembly protein TraF traF
ECUMN_RS00410 (ECUMN_p10091) 73930..74187 - 258 WP_000864314 conjugal transfer protein TrbE -
ECUMN_RS00415 (ECUMN_p10092) 74214..76064 - 1851 WP_000821859 type-F conjugative transfer system mating-pair stabilization protein TraN traN
ECUMN_RS00420 (ECUMN_p10093) 76061..76699 - 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
ECUMN_RS00425 (ECUMN_p10094) 76708..77013 - 306 WP_000224418 hypothetical protein -
ECUMN_RS00430 (ECUMN_p10095) 77043..78035 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
ECUMN_RS00435 (ECUMN_p10096) 78032..78664 - 633 WP_001203736 type-F conjugative transfer system protein TraW traW
ECUMN_RS00440 (ECUMN_p10097) 78661..79047 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
ECUMN_RS00445 (ECUMN_p10098) 79044..81674 - 2631 WP_000069778 type IV secretion system protein TraC virb4
ECUMN_RS00450 (ECUMN_p10100) 82041..82259 - 219 WP_000556746 hypothetical protein -
ECUMN_RS00455 (ECUMN_p10101) 82339..82812 - 474 WP_000549566 hypothetical protein -
ECUMN_RS00460 (ECUMN_p10102) 82805..83026 - 222 WP_001278694 conjugal transfer protein TraR -
ECUMN_RS00465 (ECUMN_p10103) 83161..83676 - 516 WP_000809888 type IV conjugative transfer system lipoprotein TraV traV
ECUMN_RS00470 (ECUMN_p10104) 83673..83925 - 253 Protein_95 conjugal transfer protein TrbG -
ECUMN_RS00475 (ECUMN_p10105) 83918..84238 - 321 WP_001057275 conjugal transfer protein TrbD virb4
ECUMN_RS00480 (ECUMN_p10106) 84225..84815 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
ECUMN_RS00485 (ECUMN_p10107) 84805..86232 - 1428 WP_000146665 F-type conjugal transfer pilus assembly protein TraB traB
ECUMN_RS00490 (ECUMN_p10108) 86232..86960 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
ECUMN_RS00495 (ECUMN_p10109) 86947..87513 - 567 WP_000399776 type IV conjugative transfer system protein TraE traE
ECUMN_RS00500 (ECUMN_p10110) 87535..87846 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
ECUMN_RS00505 (ECUMN_p10111) 87861..88220 - 360 WP_001098988 type IV conjugative transfer system pilin TraA -
ECUMN_RS00510 (ECUMN_p10113) 88326..89306 + 981 WP_000019400 IS5-like element IS5 family transposase -
ECUMN_RS00515 (ECUMN_p10114) 89453..89680 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
ECUMN_RS00520 (ECUMN_p10115) 89774..90460 - 687 WP_000332487 PAS domain-containing protein -
ECUMN_RS00525 (ECUMN_p10116) 90654..91037 - 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
ECUMN_RS00530 (ECUMN_p10117) 91368..91970 + 603 WP_001323326 transglycosylase SLT domain-containing protein virB1
ECUMN_RS00535 (ECUMN_p10118) 92266..93087 - 822 WP_001234489 DUF932 domain-containing protein -
ECUMN_RS00540 (ECUMN_p10119) 93206..93493 - 288 WP_000107526 hypothetical protein -
ECUMN_RS26170 93794..94091 + 298 Protein_110 hypothetical protein -
ECUMN_RS00550 (ECUMN_p10120) 94409..94534 - 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
ECUMN_RS26175 (ECUMN_p10120) 94476..94625 - 150 Protein_112 DUF5431 family protein -
ECUMN_RS00555 (ECUMN_p10121) 94799..95562 - 764 Protein_113 plasmid SOS inhibition protein A -
ECUMN_RS00560 (ECUMN_p10122) 95559..95993 - 435 WP_000845910 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   775 GenBank   NC_011749
Plasmid name   p1ESCUM Incompatibility group   IncFIB
Plasmid size   122301 bp Coordinate of oriT [Strand]   91036..91485 [+]
Host baterium   Escherichia coli UMN026

Cargo genes

Drug resistance gene   tet(B)
Virulence gene   senB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -