Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200361
Name   oriT_ICEP33 in_silico
Organism   Pseudomonas aeruginosa isolate P33
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP065412 (120159..120611 [-], 453 nt)
oriT length   453 nt
IRs (inverted repeats)      375..380, 393..398  (GCATTG..CAATGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 453 nt

>oriT_ICEP33
GAGGCCGGGAAGGCCTGGACCAGCTCGGCATAACGTTCCATCGGCGTGCGGTACAGCGCGGCGAACTGCTTGCGCGAGAGCGAGGTGCGCTGCCAGATGTGTTCCAGCAGCTTCTGCCGGCGCGGTGTCGCCAGCAGCGATGCGGCCGATTCCGGTTGCAGCAGCCCTTTCGGGAGATCGGTGACGGGTGCAGGCGACGGAGCGGCAGCGACCGGAGGCCGTTTCCGCTGGAACAGAGAGAGCATGTGGGTGTCCTGGTGGCGGGCAAGCGGGCGGCCTTTTCGCCTTTTCGGGTAGGGCCTTTCCCCTTGCACCCCATTCCCTTGCCGTTTCGGCCCTTTGGCCTTTAGAAGCCTTTGGATATAGAGCGGTGAGCATTGGTTGTCCACCGTCAATGCGGGTATGGCGGGGCCGGATTGATGCAGGAAGGCTGGCTGTTCCCACCCTACGATG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14389 GenBank   QPN13139
Name   TraI_2_I5U70_24420_ICEP33 insolico UniProt ID   _
Length   618 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 618 a.a.        Molecular weight: 67850.27 Da        Isoelectric Point: 6.9301

>QPN13139.1 TraI domain-containing protein [Pseudomonas aeruginosa]
MLSLFQRKRPPVAAAPSPAPVTDLPKGLLQPESAASLLATPRRQKLLEHIWQRTSLSRKQFAALYRTPME
RYAELVQAFPASEAHHHAYPGGMLDHGLEIVAYSLKLRQSHLLPIGANPEDQAAQAEAWTAAVAYAALLH
DIGKIAVDLHVELADGSIWHPWHGPLCQPYRFRYRDDREYRLHSAATGLLYRQLLDREVLDWLSCYPSLW
APLLYVLAGQYEHAGVLGELVVQADRASVAQELGGDPTRAMAAPKHALQRKLLDGLRYLLKEELKLNQHE
ASDGWLTEDGLWLVSKTVSDKLRAHLLSQGIDGIPANNTAVFNVLQDHGMLQPTPDGKAIWRATVTSSTG
WSHSFTLLRLAPALIWESGERPAPFTGTLTIDTPTAVEDVEAGATLSAKGATSALENPNAPPAEGSGITS
APPPKAQASPDVIADMLAMVGTGNSPTTDQDVETVPDEVPATLPDATQPPLAAAAPSSPAFTSSTTQPSG
EHFMAWLKHGIATRRLIINDAKALVHTVSDTAYLVSPGVFQRYAQEHPQVGKLAKQENLQDWQWVQKRFE
RLQLHRKQPSGLNIWTCEVTGARKSRKLHGYLLIKPEMVFEFTPPNNPYIFSMKFPGL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(27-340)

Putative conjugal transfer nickase/helicase TraI C-term (TraI_2_C)

(489-610)


  Protein structure



No available structure.




T4CP

ID   16890 GenBank   QPN13119
Name   traD_I5U70_24315_ICEP33 insolico UniProt ID   _
Length   727 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 727 a.a.        Molecular weight: 80754.52 Da        Isoelectric Point: 7.1767

>QPN13119.1 type IV conjugative transfer system coupling protein TraD [Pseudomonas aeruginosa]
MSGKQPVEVLLRPAVEFYTVVACAGAAFLSLVAPWSLALSPAMGVGSALAFCVYGAIRYRDARVILRYRR
NIRRLPRYVMTSKDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYVEPTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVPFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNADGEHEVVIVIDPKGDADLLKRVYVEAKHAGRESEFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKIAQLLAPNYSDLADPRPIFDWMQVIRKRAVVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGSRVPINVHADEFNELMGDEFIPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVRETATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HIVGLPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPADLQQLAGHMRQSYSEATQWWEFTSSPVLQDAAL
PDDLLDETAIATPITGTGDTASEEAAP

  Protein domains


Predicted by InterproScan.

TraM recognition site of TraD and TraG (TraG-D_C)

(508-636)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 5221953..5242195

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I5U70_24270 5217878..5220133 + 2256 QPN13111 Mov34/MPN/PAD-1 family protein -
I5U70_24275 5220179..5221249 + 1071 QPN13112 competence protein ComEC -
I5U70_24280 5221289..5221513 + 225 QPN13113 hypothetical protein -
I5U70_24285 5221406..5221774 - 369 QPN17957 hypothetical protein -
I5U70_24290 5221953..5222531 + 579 QPN13114 PilL N-terminal domain-containing protein tfc2
I5U70_24295 5222528..5223169 + 642 QPN13115 hypothetical protein -
I5U70_24300 5223184..5223921 + 738 QPN13116 TIGR03759 family integrating conjugative element protein tfc3
I5U70_24305 5223903..5224508 + 606 QPN13117 transglycosylase SLT domain-containing protein virB1
I5U70_24310 5224505..5225053 + 549 QPN13118 integrating conjugative element protein tfc5
I5U70_24315 5225058..5227241 + 2184 QPN13119 type IV conjugative transfer system coupling protein TraD -
I5U70_24320 5227238..5227999 + 762 QPN13120 TIGR03747 family integrating conjugative element membrane protein tfc7
I5U70_24325 5228098..5228481 + 384 QPN13121 RAQPRD family integrative conjugative element protein tfc8
I5U70_24330 5228478..5228711 + 234 QPN13122 TIGR03758 family integrating conjugative element protein tfc9
I5U70_24335 5228728..5229087 + 360 QPN13123 TIGR03745 family integrating conjugative element membrane protein tfc10
I5U70_24340 5229101..5229511 + 411 QPN13124 TIGR03750 family conjugal transfer protein tfc11
I5U70_24345 5229508..5230200 + 693 QPN13125 TIGR03746 family integrating conjugative element protein tfc12
I5U70_24350 5230206..5231135 + 930 QPN17907 TIGR03749 family integrating conjugative element protein tfc13
I5U70_24355 5231125..5232534 + 1410 QPN13126 TIGR03752 family integrating conjugative element protein tfc14
I5U70_24360 5232515..5232964 + 450 QPN13127 TIGR03751 family conjugal transfer lipoprotein tfc15
I5U70_24365 5232964..5235873 + 2910 QPN13128 conjugative transfer ATPase virb4
I5U70_24370 5235889..5236653 + 765 QPN13129 thioredoxin domain-containing protein -
I5U70_24375 5236839..5237333 + 495 QPN13130 DNA repair protein RadC -
I5U70_24380 5237478..5237924 + 447 QPN13131 TIGR03757 family integrating conjugative element protein tfc24
I5U70_24385 5237921..5238868 + 948 QPN13132 TIGR03756 family integrating conjugative element protein tfc23
I5U70_24390 5238879..5240297 + 1419 QPN13133 integrating conjugative element protein tfc22
I5U70_24395 5240294..5240665 + 372 QPN13134 hypothetical protein tfc18
I5U70_24400 5240678..5242195 + 1518 QPN13135 conjugal transfer protein TraG N-terminal domain-containing protein tfc19
I5U70_24405 5242215..5242589 - 375 QPN13136 DUF3742 family protein -
I5U70_24410 5242617..5243075 - 459 QPN13137 type II toxin-antitoxin system YhaV family toxin -
I5U70_24415 5243075..5243392 - 318 QPN13138 type II toxin-antitoxin system PrlF family antitoxin -
I5U70_24420 5243700..5245556 + 1857 QPN13139 TraI domain-containing protein -

Host bacterium

ID   318 Element type   ICE (Integrative and conjugative element)
Element name   ICEP33 GenBank   CP065412
Element size   7013659 bp Coordinate of oriT [Strand]   120159..120611 [-]
Host bacterium   Pseudomonas aeruginosa isolate P33 Coordinate of element   5123334..5334548

Cargo genes

Drug resistance gene   ant(2'')-Ia, aac(6')-IIa, blaCARB-2, qacE, sul1, catB7
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   dhc
Symbiosis gene   -
Anti-CRISPR   -