Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100455
Name   oriT_p417H-90 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019094 (77317..77766 [+], 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_p417H-90
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCATATATAAAAAAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGTGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACTAGTTGAGCCTTATTGTGGAGTAGGTTAAATTATTTCCGGATAATGTCACCAGAGGTGAAAAAATGAAAAAGTGGATGTTAGCAATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   526 GenBank   YP_006954170
Name   TraI_p417H-90 insolico UniProt ID   I3W000
Length   1640 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1640 a.a.        Molecular weight: 179406.48 Da        Isoelectric Point: 6.1009

>YP_006954170.1 IncF plasmid conjugative transfer DNA-nicking and unwinding protein TraI (plasmid) [Escherichia coli]
MEALASTRVMTDGQSETVLTGNLVMALFNHDTSRDQDPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFS
ENVLANRIAFGKIYQSELRQRVEALGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDV
AALDTRKSKQHVDPEIKMAEWMQTLKETGFDIRAYRDAADQRADLRTLTPGPASQDGPDVQQAVTQAIAG
LSERKVQFTYTDVLARTVGILPPEAGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALS
RDIMKQNRVTVHPEKSVPRTAGYSDAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQII
AADRRSQMNLKQDERLSGELITGRRQLQEGMTFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITD
SGQRTGTGSALMAMKDAGVNIYRWQGGEQRPTTIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVRE
QAILTQAIRSELKTQGVLGHPEVTMTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTA
QSHSLTLRDAQGETQVVRISSLDSSWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVTSVSEDAMT
VVVPGRAEPASLPVSDSPFTALKLENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYS
SLDETRTAEKLARHPSFTVVSEQIKTRAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSQVD
LLTEAKSFAAEGTSFTDLGGEINAQIKRGDLLHVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTP
LMERVPGELMEKLTSGQRAATRMILETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPERERPRVVGLGPT
HRAVGEMRSAGVDAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVA
SGDTDQLQAIAPGQPFRLQQTRSAADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQ
EGAWAPEHSVTEFSHSQEAKLAEAQQKAMQKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNED
RRVLNSMIHDAREKAGELGKEQVMVPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGL
ITLQDAEGNTRLISPREAVAEGVTLYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSD
GQKTRVIRPGQERAEQHIDLAYAITAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVY
TDNRQGWTDAINNAVQKGTAHDVLEPKSDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFI
APGRKYPQPYVALPAFDRNGRSAGIWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLAD
NMQDGVRIARDNPDSGVVVRIAGEGRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPLTAEILAQRQAEEA
IRRETERRADEIVRKMAENKPDLPDGKTEQAVREIAGQERDQAVTSEREAALPESVLREPQREREAVREI
ARENLLQERLQQMERDMVRDLQKEKTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(853-1040)

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

(517-596)

TrwC relaxase (TrwC)

(4-167)

DNA helicase TraI (TraI_C)

(1318-1441)

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

(459-510)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 50612..75290

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS957_RS00285 (D616_p92077) 46884..49072 - 2189 Protein_63 type IV conjugative transfer system coupling protein TraD -
HS957_RS00290 (D616_p92080) 49324..50037 - 714 WP_015059248 conjugal transfer complement resistance protein TraT -
HS957_RS00295 (D616_p92081) 50068..50577 - 510 WP_015059249 conjugal transfer entry exclusion protein TraS -
HS957_RS00300 (D616_p92082) 50612..53398 - 2787 WP_015059250 conjugal transfer mating-pair stabilization protein TraG traG
HS957_RS00305 (D616_p92083) 53395..54768 - 1374 WP_015059251 conjugal transfer pilus assembly protein TraH traH
HS957_RS00310 (D616_p92084) 54755..55147 - 393 WP_015059252 F-type conjugal transfer protein TrbF -
HS957_RS00315 (D616_p92085) 55134..55475 - 342 WP_172684594 P-type conjugative transfer protein TrbJ -
HS957_RS00320 (D616_p92086) 55405..55950 - 546 WP_015059254 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS957_RS00325 (D616_p92087) 55937..56218 - 282 WP_015059255 type-F conjugative transfer system pilin chaperone TraQ -
HS957_RS00330 (D616_p92088) 56285..56701 - 417 WP_015059256 hypothetical protein -
HS957_RS00335 (D616_p92089) 56817..57179 - 363 WP_015059257 hypothetical protein -
HS957_RS00340 (D616_p92090) 57193..57936 - 744 WP_001030405 type-F conjugative transfer system pilin assembly protein TraF traF
HS957_RS00345 58012..58185 - 174 Protein_75 conjugal transfer protein TrbE -
HS957_RS00350 (D616_p92091) 58212..60062 - 1851 WP_015059259 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS957_RS00355 (D616_p92092) 60059..60697 - 639 WP_015059260 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS957_RS00360 (D616_p92093) 60724..61245 - 522 WP_015059261 hypothetical protein -
HS957_RS00365 (D616_p92094) 61308..61568 - 261 WP_015059262 hypothetical protein -
HS957_RS00370 (D616_p92095) 61673..61852 - 180 WP_172684586 hypothetical protein -
HS957_RS00375 (D616_p92096) 61873..62865 - 993 WP_015059264 conjugal transfer pilus assembly protein TraU traU
HS957_RS00380 (D616_p92097) 62862..63494 - 633 WP_015059265 type-F conjugative transfer system protein TraW traW
HS957_RS00385 (D616_p92098) 63491..63877 - 387 WP_015059266 type-F conjugative transfer system protein TrbI -
HS957_RS00390 (D616_p92099) 63874..66504 - 2631 WP_015059267 type IV secretion system protein TraC virb4
HS957_RS00395 (D616_p92100) 66628..66990 - 363 WP_000836680 hypothetical protein -
HS957_RS00400 (D616_p92101) 66987..67391 - 405 WP_015059268 hypothetical protein -
HS957_RS00405 (D616_p92102) 67388..67606 - 219 WP_015059269 hypothetical protein -
HS957_RS00410 (D616_p92103) 67688..68074 - 387 WP_015059270 hypothetical protein -
HS957_RS00415 (D616_p92104) 68071..68259 - 189 Protein_89 hypothetical protein -
HS957_RS00555 69567..69854 - 288 Protein_91 hypothetical protein -
HS957_RS00425 (D616_p92108) 69847..70260 - 414 WP_015059275 hypothetical protein -
HS957_RS00430 (D616_p92109) 70253..70474 - 222 WP_001278695 conjugal transfer protein TraR -
HS957_RS00435 (D616_p92110) 70609..71124 - 516 WP_015059276 type IV conjugative transfer system lipoprotein TraV traV
HS957_RS00440 (D616_p92111) 71121..71372 - 252 WP_015059277 conjugal transfer protein TrbG -
HS957_RS00445 (D616_p92112) 71365..71685 - 321 WP_250695649 conjugal transfer protein TrbD virb4
HS957_RS00450 (D616_p92113) 71672..72232 - 561 WP_015059279 conjugal transfer pilus-stabilizing protein TraP -
HS957_RS00455 (D616_p92114) 72222..73676 - 1455 WP_015059280 F-type conjugal transfer pilus assembly protein TraB traB
HS957_RS00460 (D616_p92115) 73676..74404 - 729 WP_001230776 type-F conjugative transfer system secretin TraK traK
HS957_RS00465 (D616_p92116) 74391..74957 - 567 WP_000399773 type IV conjugative transfer system protein TraE traE
HS957_RS00470 (D616_p92117) 74979..75290 - 312 WP_000012119 type IV conjugative transfer system protein TraL traL
HS957_RS00475 (D616_p92118) 75305..75703 - 399 WP_000991520 type IV conjugative transfer system pilin TraA -
HS957_RS00480 (D616_p92119) 75737..75964 - 228 WP_015059281 conjugal transfer relaxosome protein TraY -
HS957_RS00560 76057..76742 - 686 Protein_104 PAS domain-containing protein -
HS957_RS00495 (D616_p92122) 76935..77318 - 384 WP_001151557 conjugal transfer relaxosome DNA-binding protein TraM -
HS957_RS00500 (D616_p92123) 77682..78251 + 570 Protein_106 transglycosylase SLT domain-containing protein -
HS957_RS00505 (D616_p92125) 78548..79369 - 822 WP_001234447 DUF932 domain-containing protein -

Host bacterium

ID   916 GenBank   NC_019094
Plasmid name   p417H-90 Incompatibility group   IncFIC(FII)
Plasmid size   79478 bp Coordinate of oriT [Strand]   77317..77766 [+]
Host baterium   Escherichia coli

Cargo genes

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