Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102260
Name   oriT_Cr2|unnamed in_silico
Organism   Aeromonas dhakensis strain Cr2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LBDJ01000026 (54523..54673 [-], 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_Cr2|unnamed
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1740 GenBank   WP_063941760
Name   mobH_AAW03_RS19990_Cr2|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   1325 GenBank   WP_099360018
Name   traC_AAW03_RS19910_Cr2|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   1326 GenBank   WP_000178858
Name   traD_AAW03_RS19985_Cr2|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: 33323..56589

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AAW03_RS19850 (AAW03_19360) 28449..29354 - 906 WP_000739141 hypothetical protein -
AAW03_RS19855 (AAW03_19365) 29366..30334 - 969 WP_001553257 AAA family ATPase -
AAW03_RS19860 (AAW03_19370) 30555..30740 - 186 WP_001186892 hypothetical protein -
AAW03_RS19865 31051..31371 - 321 WP_000547567 hypothetical protein -
AAW03_RS19870 (AAW03_19380) 31662..32312 + 651 WP_000796641 hypothetical protein -
AAW03_RS19875 (AAW03_19385) 32424..33284 + 861 WP_000679674 hypothetical protein -
AAW03_RS19880 (AAW03_19390) 33323..36061 - 2739 WP_057521206 conjugal transfer mating pair stabilization protein TraN traN
AAW03_RS19885 36212..37216 - 1005 WP_000911304 TraU family protein traU
AAW03_RS19890 (AAW03_19395) 37210..37887 - 678 WP_012766331 EAL domain-containing protein -
AAW03_RS19895 (AAW03_19400) 37884..39152 - 1269 WP_057521207 TrbC family F-type conjugative pilus assembly protein traW
AAW03_RS19900 (AAW03_19405) 39115..39645 - 531 WP_000672456 S26 family signal peptidase -
AAW03_RS19905 (AAW03_19410) 39642..39959 - 318 WP_000364398 hypothetical protein -
AAW03_RS19910 (AAW03_19415) 39974..42421 - 2448 WP_099360018 type IV secretion system protein TraC virb4
AAW03_RS19915 (AAW03_19420) 42418..43125 - 708 WP_099360019 DsbC family protein -
AAW03_RS23925 (AAW03_19425) 43275..46004 - 2730 WP_143248408 hypothetical protein -
AAW03_RS23930 46009..47055 - 1047 WP_143248409 hypothetical protein -
AAW03_RS19925 (AAW03_19430) 47120..47506 - 387 WP_172442819 TraA family conjugative transfer protein -
AAW03_RS19930 47519..48097 - 579 WP_099360022 type IV conjugative transfer system lipoprotein TraV traV
AAW03_RS19935 (AAW03_19435) 48094..49410 - 1317 WP_099360023 TraB/VirB10 family protein traB
AAW03_RS19940 (AAW03_19440) 49407..50324 - 918 WP_099360024 type-F conjugative transfer system secretin TraK traK
AAW03_RS19945 (AAW03_19445) 50308..50934 - 627 WP_099360025 TraE/TraK family type IV conjugative transfer system protein traE
AAW03_RS19950 (AAW03_19450) 50931..51212 - 282 WP_099360026 type IV conjugative transfer system protein TraL traL
AAW03_RS19955 (AAW03_19455) 51355..51702 - 348 WP_242441274 hypothetical protein -
AAW03_RS19960 (AAW03_19460) 52037..52699 - 663 WP_099360027 hypothetical protein -
AAW03_RS19965 (AAW03_19465) 52699..53076 - 378 WP_000869260 hypothetical protein -
AAW03_RS19970 (AAW03_19470) 53086..53532 - 447 WP_099360028 hypothetical protein -
AAW03_RS19975 (AAW03_19475) 53543..54172 - 630 WP_057521214 DUF4400 domain-containing protein tfc7
AAW03_RS19980 (AAW03_19480) 54129..54674 - 546 WP_023356350 hypothetical protein -
AAW03_RS19985 (AAW03_19485) 54724..56589 - 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
AAW03_RS19990 (AAW03_19490) 56586..59549 - 2964 WP_063941760 MobH family relaxase -
AAW03_RS19995 (AAW03_19495) 59717..60334 + 618 WP_012766323 hypothetical protein -
AAW03_RS20000 (AAW03_19500) 60316..60549 + 234 WP_001191893 hypothetical protein -

Host bacterium

ID   2704 GenBank   NZ_LBDJ01000026
Plasmid name   Cr2|unnamed Incompatibility group   IncA/C
Plasmid size   121169 bp Coordinate of oriT [Strand]   54523..54673 [-]
Host baterium   Aeromonas dhakensis strain Cr2

Cargo genes

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