Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   200410
Name   oriT_Tn6586 in_silico
Organism   Pseudomonas aeruginosa strain 1903031130
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   CP060392 (47347..47818 [-], 472 nt)
oriT length   472 nt
IRs (inverted repeats)      200..205, 219..224  (CAGCGA..TCGCTG)
 135..141, 148..154  (TGCGGCC..GGCCGCA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 472 nt

>oriT_Tn6586
GGGAACTGCTGGACCAACTCGGCGTAGCACTCCAGCGGAGCGCGATAGAGGATGGCGAACTGCTTGCGCGACAGCGATGTGCGCTGCCAGATGTGTTCCAGCAGCTTTTGCCGGCGCGGTATCGCCAGTAGGGATGCGGCCGACTCGGGCCGCAGCAGCCCTTTCGGAAGATCAGTGGCTGGCGTTGGCGACGGAGCGGCAGCGACCGAGGCCCGTTTTCGCTGGAACAGGGAGAGCATGAGGGTGTCCTGATGGCGGGCCGACCGGGAGGCCTTTTTGCTTTTTCGAGGTAGGGCCTTTCCCCTTGCACTCCATTCCCTTCCCCTTTCGGCCTTTTGGCCCTTAACAGCCTTTGGGTATAGGGCGCCAGGCGTTGATCGTCCACCACCAATGCGGGTTGCAGCGGGGCCGGATTGATGCGGGAAGGCGGGCTGTTCCCAGCCTACGATGGGCCGATTCTTGGACTCGGGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14438 GenBank   QQW21099
Name   rlx_H8A93_24705_Tn6586 insolico UniProt ID   _
Length   620 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 620 a.a.        Molecular weight: 67923.42 Da        Isoelectric Point: 7.1518

>QQW21099.1 TraI domain-containing protein [Pseudomonas aeruginosa]
MLSLFQRKRASVAAAPSPTPATDLPKGLLRPESAASLLAIPRRQKLLEHIWQRTSLSRKQFAILYRAPLE
CYAELVQQFPASEAHHHAYPGGMLDHGLEIVAYSLKLRQSHLLPIGANPEDQAAQSEAWTAAVAYAALLH
DIGKIAVDLHVELADGSTWHPWHGPLQQPYRFRYRDDREYRLHSAATGLLHHQLLDRQILDWLSGYPALW
GPLLYVLAGQYEHAGVLGELVVQADRASVALELGGDPARAMVAPKHALQRKLLDGLRYLLKEELKLNQPE
ASDGWLTEDGLWLVSKTVSDKLRAHLLSQGIDGIPANNTAVFNVLQDHGMLKPTPDGKAVWRATVISTTG
WSHSFTLLRLAPALIWESGERPAPFAGTVAIDATLAENDASAPATPPAVVMKPAQEDQGPRPWEGGSAAA
LAPPPTAHQALPDALEDMLTMVGMGDSSGTQQDAEVVSSMTPATRPEASMPAMVTVSPTSMPTAATSPST
ARPSGEHFMTWLQQGIASRRLIINDAKALVHTVSDTAYLVSPGVFQRYAQEHPQVGAFAKQENQQDWRWV
QKRFERLQLHRKQASGLNIWTCEVTGPRKSRKLHGYLLLQPQSVFGDVPPNNPYLAVLPT

  Protein domains


Predicted by InterproScan.

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

(494-616)

Putative helicase (TraI_2)

(27-340)


  Protein structure



No available structure.




T4CP

ID   16971 GenBank   QQW21077
Name   cpl_H8A93_24595_Tn6586 insolico UniProt ID   _
Length   728 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 728 a.a.        Molecular weight: 80922.65 Da        Isoelectric Point: 7.3167

>QQW21077.1 coupling protein [Pseudomonas aeruginosa]
MSGKQPVEVLLRPAVEFYTVAACAGAAFLSLVAPWSLALSPAMGVGSALAFCAYGAIRYRDARVILRYRR
NIRRLPRYVMTSKDVPVSQQRLFVGRGFLWEQKHTHRLMQTYRPEFRRYVELTPAYRLARRLEERLEFAP
FPLSRLPALTGWDVSFNPVRPLPPVGGLPRLHGIEPDEVDVSLPLGERVGHSLVLGTTRVGKTRLAELFV
TQDIRRKNADGEHEVVIVIDPKGDADLLKRVYVEAKRAGREGEFYVFHLGWPDISARYNAVGRFGRISEV
ATRVAGQLSGEGNSAAFREFAWRFVNIIARALVELGQRPDYMLIQRHVINIDALFIEYAQHYFAKTEPKA
WEVIVQIEAKLNEKNIPRNMIGREKRVVALEQYLSQARNYDPVLDGLRSAVRYDKTYFDKIVASLLPLLE
KLTSGKISQLLAPNYSDLADPRPIFDWMQVIRKRAVVYVGLDALSDAEVAAAVGNSMFSDLVSVAGHIYK
HGIDDGLPGASAGTRVPINVHADEFNELMGDEFVPLINKGGGAGLQVTAYTQTLSDIEARIGNRAKAGQV
IGNFNNLFMLRVRETATAELLTRQLPKVEVYTTTIVSGATDSSDIRGATDFTSNTQDRISMSSVPMIEPS
HVVALPKGQCFALLQGGQLWKVRMPLPAPDPDEVMPQDLQQLAGYMRQSYSEATQWWEFTSSPVLQDTAL
PDDLLDEVATADAPASGTGDMARDEAAP

  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: 5234713..5256289

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H8A93_24550 5229814..5230464 + 651 QQW21068 hypothetical protein -
H8A93_24555 5230529..5231650 + 1122 QQW21069 class I SAM-dependent methyltransferase -
H8A93_24560 5231751..5232062 + 312 QQW21070 hypothetical protein -
H8A93_24565 5232200..5234479 + 2280 QQW21071 DEAD/DEAH box helicase -
H8A93_24570 5234713..5235291 + 579 QQW21072 Conjugal transfer protein PilL tfc2
H8A93_24575 5235288..5235929 + 642 QQW21073 hypothetical protein -
H8A93_24580 5235944..5236681 + 738 QQW21074 TIGR03759 family integrating conjugative element protein tfc3
H8A93_24585 5236663..5237268 + 606 QQW21075 transglycosylase SLT domain-containing protein virB1
H8A93_24590 5237265..5237813 + 549 QQW21076 integrating conjugative element protein tfc5
H8A93_24595 5237818..5240004 + 2187 QQW21077 coupling protein -
H8A93_24600 5240001..5240750 + 750 QQW21078 TIGR03747 family integrating conjugative element membrane protein tfc7
H8A93_24605 5240751..5242121 - 1371 QQW21079 Vacuolar import and degradation protein -
H8A93_24610 5242283..5242663 + 381 QQW21080 RAQPRD family integrative conjugative element protein tfc8
H8A93_24615 5242660..5242893 + 234 QQW21081 TIGR03758 family integrating conjugative element protein tfc9
H8A93_24620 5242910..5243269 + 360 QQW21082 TIGR03745 family integrating conjugative element membrane protein tfc10
H8A93_24625 5243282..5243692 + 411 QQW21083 TIGR03750 family conjugal transfer protein tfc11
H8A93_24630 5243689..5244378 + 690 QQW21084 TIGR03746 family integrating conjugative element protein tfc12
H8A93_24635 5244375..5245307 + 933 QQW21085 TIGR03749 family integrating conjugative element protein tfc13
H8A93_24640 5245297..5246715 + 1419 QQW21086 TIGR03752 family integrating conjugative element protein tfc14
H8A93_24645 5246696..5247136 + 441 QQW21087 TIGR03751 family conjugal transfer lipoprotein tfc15
H8A93_24650 5247136..5250006 + 2871 QQW21088 F-type type IV secretion, ATPase/inner membrane complex component TivF15 virb4
H8A93_24655 5250022..5250774 + 753 QQW21089 DsbA family protein -
H8A93_24660 5250961..5251455 + 495 QQW21090 DNA repair protein RadC -
H8A93_24665 5251599..5252045 + 447 QQW21091 TIGR03757 family integrating conjugative element protein tfc24
H8A93_24670 5252042..5252989 + 948 QQW21092 TIGR03756 family integrating conjugative element protein tfc23
H8A93_24675 5253000..5254394 + 1395 QQW21093 integrating conjugative element protein tfc22
H8A93_24680 5254391..5254750 + 360 QQW21094 hypothetical protein tfc18
H8A93_24685 5254766..5256289 + 1524 QQW21095 F-type type IV secretion, mating pair stabilization protein TivF3 tfc19
H8A93_24690 5256296..5256658 - 363 QQW21096 DUF3742 family protein -
H8A93_24695 5256686..5257144 - 459 QQW21097 type II toxin-antitoxin system YhaV family toxin -
H8A93_24700 5257144..5257461 - 318 QQW21098 type II toxin-antitoxin system PrlF family antitoxin -
H8A93_24705 5257773..5259635 + 1863 QQW21099 TraI domain-containing protein -
H8A93_24710 5259646..5260227 - 582 QRG26739 hypothetical protein -
H8A93_24715 5260413..5260646 - 234 Protein_4892 Tn3 family transposase -

Host bacterium

ID   365 Element type   ICE (Integrative and conjugative element)
Element name   Tn6586 GenBank   CP060392
Element size   6905506 bp Coordinate of oriT [Strand]   47347..47818 [-]
Host bacterium   Pseudomonas aeruginosa strain 1903031130 Coordinate of element   5210194..5310891

Cargo genes

Drug resistance gene   blaGES-15, aph(3')-XV, qacE, floR, tet(G), sul1
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -