Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111592
Name   oriT_pTMTA97591 in_silico
Organism   Phytobacter diazotrophicus strain TA9759
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP028048 (88584..88734 [+], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      93..98, 106..111  (TGGCCT..AGGCCA)
 12..17, 24..29  (AACCCT..AGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_pTMTA97591
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7517 GenBank   WP_143474952
Name   mobH_QUE80_RS27980_pTMTA97591 insolico UniProt ID   _
Length   992 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109639.89 Da        Isoelectric Point: 4.8747

>WP_143474952.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEESALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   8559 GenBank   WP_000178856
Name   traD_QUE80_RS27985_pTMTA97591 insolico UniProt ID   _
Length   621 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 621 a.a.        Molecular weight: 69197.66 Da        Isoelectric Point: 6.9403

>WP_000178856.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

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

(471-598)

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-297)

  Protein structure



No available structure.



ID   8560 GenBank   WP_000637386
Name   traC_QUE80_RS28060_pTMTA97591 insolico UniProt ID   _
Length   815 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 815 a.a.        Molecular weight: 92590.87 Da        Isoelectric Point: 5.9222

>WP_000637386.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTERIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRQQAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(449-809)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 86668..111859

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QUE80_RS27970 82693..82926 - 234 WP_143474954 hypothetical protein -
QUE80_RS27975 (PDTA9759_55230) 82908..83525 - 618 WP_143474953 hypothetical protein -
QUE80_RS27980 (PDTA9759_55240) 83693..86671 + 2979 WP_143474952 MobH family relaxase -
QUE80_RS27985 (PDTA9759_55250) 86668..88533 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
QUE80_RS27990 (PDTA9759_55260) 88583..89128 + 546 WP_000228720 hypothetical protein -
QUE80_RS27995 (PDTA9759_55270) 89085..89714 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
QUE80_RS28000 (PDTA9759_55280) 89724..90170 + 447 WP_000122506 hypothetical protein -
QUE80_RS28005 (PDTA9759_55290) 90180..90557 + 378 WP_000869261 hypothetical protein -
QUE80_RS28010 (PDTA9759_55300) 90557..91219 + 663 WP_001231463 hypothetical protein -
QUE80_RS28015 (PDTA9759_55320) 91555..91920 + 366 WP_001052531 hypothetical protein -
QUE80_RS28020 (PDTA9759_55330) 92065..92346 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
QUE80_RS28025 (PDTA9759_55340) 92343..92969 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
QUE80_RS28030 (PDTA9759_55350) 92953..93870 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
QUE80_RS28035 (PDTA9759_55360) 93870..95183 + 1314 WP_024131605 TraB/VirB10 family protein traB
QUE80_RS28040 (PDTA9759_55370) 95180..95758 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
QUE80_RS28045 (PDTA9759_55380) 95762..96154 + 393 WP_000479535 TraA family conjugative transfer protein -
QUE80_RS28050 (PDTA9759_55390) 96355..101886 + 5532 WP_000606833 Ig-like domain-containing protein -
QUE80_RS28055 (PDTA9759_55400) 102035..102742 + 708 WP_001259347 DsbC family protein -
QUE80_RS28060 (PDTA9759_55410) 102739..105186 + 2448 WP_000637386 type IV secretion system protein TraC virb4
QUE80_RS28065 (PDTA9759_55420) 105201..105518 + 318 WP_000351984 hypothetical protein -
QUE80_RS28070 (PDTA9759_55430) 105515..106045 + 531 WP_001010738 S26 family signal peptidase -
QUE80_RS28075 (PDTA9759_55440) 106008..107273 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
QUE80_RS28080 (PDTA9759_55450) 107270..107941 + 672 WP_001337754 EAL domain-containing protein -
QUE80_RS28085 (PDTA9759_55460) 107941..108945 + 1005 WP_043940352 TraU family protein traU
QUE80_RS28090 (PDTA9759_55470) 109061..111859 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
QUE80_RS28095 (PDTA9759_55480) 111898..112758 - 861 WP_000709517 hypothetical protein -
QUE80_RS28100 (PDTA9759_55490) 112881..113522 - 642 WP_000796664 hypothetical protein -
QUE80_RS28105 (PDTA9759_55500) 113816..114136 + 321 WP_000547566 hypothetical protein -
QUE80_RS28110 (PDTA9759_55510) 114440..114625 + 186 WP_001186917 hypothetical protein -
QUE80_RS28115 (PDTA9759_55520) 114845..115813 + 969 WP_000085162 AAA family ATPase -
QUE80_RS28120 (PDTA9759_55530) 115824..116732 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   12027 GenBank   NZ_AP028048
Plasmid name   pTMTA97591 Incompatibility group   IncA/C2
Plasmid size   174343 bp Coordinate of oriT [Strand]   88584..88734 [+]
Host baterium   Phytobacter diazotrophicus strain TA9759

Cargo genes

Drug resistance gene   fosA3, aac(6')-IIa, dfrA1, aadA2, qacE, sul1, blaNDM-1, catB3, ARR-3, armA, msr(E), mph(E), sul2, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -