Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111084
Name   oriT_p5955A in_silico
Organism   Enterobacter hormaechei subsp. xiangfangensis strain NMI5955/16
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OQ111275 (34344..34494 [+], 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_p5955A
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7280 GenBank   WP_058662807
Name   mobH_Q5M30_RS00230_p5955A insolico UniProt ID   A0A221KLA3
Length   987 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 987 a.a.        Molecular weight: 109306.91 Da        Isoelectric Point: 4.9372

>WP_058662807.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALHKLFGGRSGAIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWATQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAYRHGIDRYFIRWRDKRHKRHEQFSL
LAWHRIIPAETQEFLSKSGPSIIEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVNEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISQDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGPVKILMLRLESNDLVFTTEPPAAVTGEVVGDVEDAEIE
FVDPEEADEDQAEGDAGLNNDMLAAELEAEKALAGLGFGDAMAMLKSTSDIAEEKPEQEDTESTELPKPD
ASKKGKQQSKPGKARAEKQPQKPEVKEDLSPQDIAKNAPPLANDDPLQALKDVGGGLGDIDFPFDVFNAS
AETACTDATNLAIPDITEPVKQEEQPKPDFVPQEQNSLQNGDFPIFSDSDEPPSWAIEPLPMLTDTPEQT
IPAPDMQHAGKPKELEKDAKTLLSEMLAGYGEASTLLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPEGA
RSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLVDQLSDAVVAAIKDAEASMGGYQEAFELV
SPPGSGVSKNKSAPKQQSRKKTQQQKPEVDAGAGSEQKTKDKSLQQQPKEKQGNVASLVEEQKRKPVQDQ
EKQNVARLPKREAQPVASKPKVEHERELGHVEVRERDEPEVREFEPPKAKTNPKDINEEDFLPSGVTPEK
ALLMLKDMIQKRSGRWLVTPVLEEDGCLVTSVKAFDMIAGENVGISKHILYGLLSRAQRRPLLKKRQGKL
YLEVDKA

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A221KLA3


T4CP

ID   8290 GenBank   WP_000178858
Name   traD_Q5M30_RS00235_p5955A 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.



ID   8291 GenBank   WP_051479468
Name   traC_Q5M30_RS00315_p5955A 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: 92523.78 Da        Isoelectric Point: 5.9204

>WP_051479468.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIITIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDQSVGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTSLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTSKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQHLAQIRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYDDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSQKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSTFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSDGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 32428..57532

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Q5M30_RS00220 28468..28701 - 234 WP_039272424 hypothetical protein -
Q5M30_RS00225 28683..29165 - 483 WP_228279876 hypothetical protein -
Q5M30_RS00230 29468..32431 + 2964 WP_058662807 MobH family relaxase -
Q5M30_RS00235 32428..34293 + 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
Q5M30_RS00240 34304..34888 + 585 WP_000332867 hypothetical protein -
Q5M30_RS00245 34845..35474 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
Q5M30_RS00250 35485..35931 + 447 WP_039272421 hypothetical protein -
Q5M30_RS00255 35941..36318 + 378 WP_000869260 hypothetical protein -
Q5M30_RS00260 36318..36980 + 663 WP_039272419 hypothetical protein -
Q5M30_RS00265 37159..37302 + 144 WP_168199038 hypothetical protein -
Q5M30_RS00270 37315..37662 + 348 WP_039272417 hypothetical protein -
Q5M30_RS00275 37805..38086 + 282 WP_000805626 type IV conjugative transfer system protein TraL traL
Q5M30_RS00280 38083..38709 + 627 WP_039272415 TraE/TraK family type IV conjugative transfer system protein traE
Q5M30_RS00285 38693..39610 + 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
Q5M30_RS00290 39607..40923 + 1317 WP_039272412 TraB/VirB10 family protein traB
Q5M30_RS00295 40920..41498 + 579 WP_039272410 type IV conjugative transfer system lipoprotein TraV traV
Q5M30_RS00300 41502..41894 + 393 WP_012766327 TraA family conjugative transfer protein -
Q5M30_RS00305 42095..47581 + 5487 WP_039272407 Ig-like domain-containing protein -
Q5M30_RS00310 47730..48437 + 708 WP_001259344 DsbC family protein -
Q5M30_RS00315 48434..50881 + 2448 WP_051479468 type IV secretion system protein TraC virb4
Q5M30_RS00320 50896..51213 + 318 WP_000364398 hypothetical protein -
Q5M30_RS00325 51210..51740 + 531 WP_000672456 S26 family signal peptidase -
Q5M30_RS00330 51703..52971 + 1269 WP_039272404 TrbC family F-type conjugative pilus assembly protein traW
Q5M30_RS00335 52968..53645 + 678 WP_039272402 EAL domain-containing protein -
Q5M30_RS00340 53639..54643 + 1005 WP_000911304 TraU family protein traU
Q5M30_RS00345 54794..57532 + 2739 WP_058662805 conjugal transfer mating pair stabilization protein TraN traN
Q5M30_RS00350 57571..58431 - 861 WP_000679674 hypothetical protein -
Q5M30_RS00355 58543..59193 - 651 WP_000796641 hypothetical protein -
Q5M30_RS00360 59485..59805 + 321 WP_012766334 hypothetical protein -
Q5M30_RS00365 60116..60301 + 186 WP_001186892 hypothetical protein -
Q5M30_RS00370 60522..61490 + 969 WP_001553257 AAA family ATPase -
Q5M30_RS00375 61631..62407 + 777 WP_228279871 hypothetical protein -

Host bacterium

ID   11519 GenBank   NZ_OQ111275
Plasmid name   p5955A Incompatibility group   IncA/C
Plasmid size   153908 bp Coordinate of oriT [Strand]   34344..34494 [+]
Host baterium   Enterobacter hormaechei subsp. xiangfangensis strain NMI5955/16

Cargo genes

Drug resistance gene   blaVIM-1, aph(3')-XV, ant(3'')-Ia, catB2, qacE, sul1, qnrS1, aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -