Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122111
Name   oriT_IncC in_silico
Organism   Pseudenterobacter timonensis strain CNCI147
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAQGEC010000011 (112408..112558 [-], 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_IncC
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13939 GenBank   WP_310826500
Name   mobH_O7047_RS13615_IncC 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: 109585.84 Da        Isoelectric Point: 4.8956

>WP_310826500.1 MobH family relaxase [Pseudenterobacter timonensis]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQTHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   16343 GenBank   WP_000637386
Name   traC_O7047_RS13520_IncC 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.



ID   16344 GenBank   WP_000178856
Name   traD_O7047_RS13610_IncC 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 87687..114474

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
O7047_RS13460 (O7047_13425) 82814..83722 - 909 WP_000739139 hypothetical protein -
O7047_RS13465 (O7047_13430) 83733..84701 - 969 WP_000085162 AAA family ATPase -
O7047_RS13470 (O7047_13435) 84921..85106 - 186 WP_001186917 hypothetical protein -
O7047_RS13475 (O7047_13440) 85410..85730 - 321 WP_000547566 hypothetical protein -
O7047_RS13480 (O7047_13445) 86024..86665 + 642 WP_000796664 hypothetical protein -
O7047_RS13485 (O7047_13450) 86788..87648 + 861 WP_000709517 hypothetical protein -
O7047_RS13490 (O7047_13455) 87687..90485 - 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
O7047_RS13495 (O7047_13460) 90601..91605 - 1005 WP_043940352 TraU family protein traU
O7047_RS13500 (O7047_13465) 91605..92276 - 672 WP_001337754 EAL domain-containing protein -
O7047_RS13505 (O7047_13470) 92273..93538 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
O7047_RS13510 (O7047_13475) 93501..94031 - 531 WP_001010738 S26 family signal peptidase -
O7047_RS13515 (O7047_13480) 94028..94345 - 318 WP_000351984 hypothetical protein -
O7047_RS13520 (O7047_13485) 94360..96807 - 2448 WP_000637386 type IV secretion system protein TraC virb4
O7047_RS13525 (O7047_13490) 96804..97511 - 708 WP_001259347 DsbC family protein -
O7047_RS13530 (O7047_13495) 97660..103191 - 5532 WP_310826498 Ig-like domain-containing protein -
O7047_RS13535 (O7047_13500) 103392..103784 - 393 WP_000479535 TraA family conjugative transfer protein -
O7047_RS13540 (O7047_13505) 103788..104366 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
O7047_RS13545 (O7047_13510) 104363..105676 - 1314 WP_024131605 TraB/VirB10 family protein traB
O7047_RS13550 (O7047_13515) 105676..106593 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
O7047_RS13555 (O7047_13520) 106577..107203 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
O7047_RS13560 (O7047_13525) 107200..107481 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
O7047_RS13565 (O7047_13530) 107626..107991 - 366 WP_001052531 hypothetical protein -
O7047_RS13570 (O7047_13535) 108003..108146 - 144 WP_001275801 hypothetical protein -
O7047_RS13575 108596..108862 + 267 WP_000162675 DUF6444 domain-containing protein -
O7047_RS13580 (O7047_13540) 108883..110052 + 1170 Protein_122 IS66-like element ISVch7 family transposase -
O7047_RS13585 (O7047_13545) 110061..110585 - 525 WP_310826499 hypothetical protein -
O7047_RS13590 (O7047_13550) 110585..110962 - 378 WP_000869261 hypothetical protein -
O7047_RS13595 (O7047_13555) 110972..111418 - 447 WP_000122506 hypothetical protein -
O7047_RS13600 (O7047_13560) 111428..112057 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
O7047_RS13605 (O7047_13565) 112014..112559 - 546 WP_000228720 hypothetical protein -
O7047_RS13610 (O7047_13570) 112609..114474 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
O7047_RS13615 (O7047_13575) 114471..117449 - 2979 WP_310826500 MobH family relaxase -
O7047_RS13620 (O7047_13580) 117617..118234 + 618 WP_001249396 hypothetical protein -
O7047_RS13625 (O7047_13585) 118216..118449 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   22538 GenBank   NZ_JAQGEC010000011
Plasmid name   IncC Incompatibility group   IncA/C2
Plasmid size   151578 bp Coordinate of oriT [Strand]   112408..112558 [-]
Host baterium   Pseudenterobacter timonensis strain CNCI147

Cargo genes

Drug resistance gene   sul2, mph(E), msr(E), mph(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -