Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102267
Name   oriT_Cr1|unnamed in_silico
Organism   Aeromonas dhakensis strain Cr1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LBDI01000026 (54524..54674 [-], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      12..17, 24..29  (AACCCG..CGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_Cr1|unnamed
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1743 GenBank   WP_063941760
Name   mobH_AAW02_RS17870_Cr1|unnamed insolico UniProt ID   _
Length   987 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 987 a.a.        Molecular weight: 109390.00 Da        Isoelectric Point: 4.9395

>WP_063941760.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALHKLFGGRSGAIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWATQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAYRHGIDRYFIRWRDKRHKRHEQFSL
LAWHRIIPAETQEFLSKSGPSIIEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVNEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISQDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGDRAYYRYWEVLPEMLQEAAGPVKILMLRLESNDLVFTTEPPAAVTGEVVGDVEDAEIE
FVDPEEADEDQAEGDAGLNNDMLAAELEAEKALAGLGFGDAMAMLKSTSDIAEEKPEQEDTESTELPKPD
ASKKGKQQSKPGKARAEKQPQKPEVKEDLSPQDIAKNAPPLANDDPLQALKDVGGGLGDIDFPFDVFNAS
AETACTDATNLEIPDITEPEKQEKQPKPDFVPQEQNSLQNGDFPIFSDSDEPPSWAIEPLPMLTDTPEQT
IPAPDMQHAGKPKELEKDAKTLLSEMLAGYGEASTLLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPEGA
RSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLVDQLSDAVVAAIKDAEASMGGYQEAFELV
SPPGSGVSKNKSAPKQQSRKKTQQQKPEVDAGAGSEQKTKDKSLQQQPKEKQGNVASLVEEQKRKPVQDQ
EKQNVARLPKREAQPVAPKPKVEHERELGHVEVRERDEPEVREFEPPKAKTNPKDINEEDFLPSGVTPEK
ALLMLKDMIQKRSGRWLVTPVLEEDGCLVTSVKAFDMIAGENVGISKHILYGLLSRAQRRPLLKKRQGKL
YLEVDKA

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   1332 GenBank   WP_099360018
Name   traC_AAW02_RS17790_Cr1|unnamed 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: 92662.83 Da        Isoelectric Point: 5.4466

>WP_099360018.1 type IV secretion system protein TraC [Aeromonas dhakensis]
MIITIKKKLEETLIPEHLRAAGIIPVLAYDEDDYVFLMDDQSVGFGFMCEPLCGADEKEQERMNGFLNQE
FPSRATLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFARTDKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEIDKPICEQIFDYDTDVEVSKNGIRLGDYHAKIMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVIF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDREAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQALSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSQKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSTFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLALSDGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRKQAA

  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   1333 GenBank   WP_000178858
Name   traD_AAW02_RS17865_Cr1|unnamed 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: 69248.76 Da        Isoelectric Point: 7.1093

>WP_000178858.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWMAASCAALAVEQVSTMPSEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPEDMWLGSGFLWENRHAQRVFEILKRDWTSIVGKESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVLTHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVKPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNTDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  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: 33324..56590

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AAW02_RS17730 (AAW02_17275) 28450..29355 - 906 WP_000739141 hypothetical protein -
AAW02_RS17735 (AAW02_17280) 29367..30335 - 969 WP_001553257 AAA family ATPase -
AAW02_RS17740 (AAW02_17285) 30556..30741 - 186 WP_001186892 hypothetical protein -
AAW02_RS17745 31052..31372 - 321 WP_000547567 hypothetical protein -
AAW02_RS17750 (AAW02_17295) 31663..32313 + 651 WP_000796641 hypothetical protein -
AAW02_RS17755 (AAW02_17300) 32425..33285 + 861 WP_000679674 hypothetical protein -
AAW02_RS17760 (AAW02_17305) 33324..36062 - 2739 WP_057521206 conjugal transfer mating pair stabilization protein TraN traN
AAW02_RS17765 36213..37217 - 1005 WP_000911304 TraU family protein traU
AAW02_RS17770 (AAW02_17310) 37211..37888 - 678 WP_012766331 EAL domain-containing protein -
AAW02_RS17775 (AAW02_17315) 37885..39153 - 1269 WP_057521207 TrbC family F-type conjugative pilus assembly protein traW
AAW02_RS17780 (AAW02_17320) 39116..39646 - 531 WP_000672456 S26 family signal peptidase -
AAW02_RS17785 (AAW02_17325) 39643..39960 - 318 WP_000364398 hypothetical protein -
AAW02_RS17790 (AAW02_17330) 39975..42422 - 2448 WP_099360018 type IV secretion system protein TraC virb4
AAW02_RS17795 (AAW02_17335) 42419..43126 - 708 WP_099360019 DsbC family protein -
AAW02_RS23950 (AAW02_17340) 43276..46005 - 2730 WP_143248408 hypothetical protein -
AAW02_RS23955 46010..47056 - 1047 WP_143248409 hypothetical protein -
AAW02_RS17805 (AAW02_17345) 47121..47507 - 387 WP_172442819 TraA family conjugative transfer protein -
AAW02_RS17810 47520..48098 - 579 WP_099360022 type IV conjugative transfer system lipoprotein TraV traV
AAW02_RS17815 (AAW02_17350) 48095..49411 - 1317 WP_099360023 TraB/VirB10 family protein traB
AAW02_RS17820 (AAW02_17355) 49408..50325 - 918 WP_099360024 type-F conjugative transfer system secretin TraK traK
AAW02_RS17825 (AAW02_17360) 50309..50935 - 627 WP_099360025 TraE/TraK family type IV conjugative transfer system protein traE
AAW02_RS17830 (AAW02_17365) 50932..51213 - 282 WP_099360026 type IV conjugative transfer system protein TraL traL
AAW02_RS17835 (AAW02_17370) 51356..51703 - 348 WP_242441274 hypothetical protein -
AAW02_RS17840 (AAW02_17375) 52038..52700 - 663 WP_099360027 hypothetical protein -
AAW02_RS17845 (AAW02_17380) 52700..53077 - 378 WP_000869260 hypothetical protein -
AAW02_RS17850 (AAW02_17385) 53087..53533 - 447 WP_099360028 hypothetical protein -
AAW02_RS17855 (AAW02_17390) 53544..54173 - 630 WP_057521214 DUF4400 domain-containing protein tfc7
AAW02_RS17860 (AAW02_17395) 54130..54714 - 585 WP_000332867 hypothetical protein -
AAW02_RS17865 (AAW02_17400) 54725..56590 - 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
AAW02_RS17870 (AAW02_17405) 56587..59550 - 2964 WP_063941760 MobH family relaxase -
AAW02_RS17875 (AAW02_17410) 59718..60335 + 618 WP_012766323 hypothetical protein -
AAW02_RS17880 (AAW02_17415) 60317..60550 + 234 WP_001191893 hypothetical protein -

Host bacterium

ID   2711 GenBank   NZ_LBDI01000026
Plasmid name   Cr1|unnamed Incompatibility group   IncA/C
Plasmid size   121171 bp Coordinate of oriT [Strand]   54524..54674 [-]
Host baterium   Aeromonas dhakensis strain Cr1

Cargo genes

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