Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120480
Name   oriT_pE51_002 in_silico
Organism   Citrobacter freundii strain E51
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP042536 (46790..46940 [+], 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_pE51_002
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12898 GenBank   WP_000909947
Name   mobH_FR801_RS26615_pE51_002 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: 109404.96 Da        Isoelectric Point: 4.8922

>WP_000909947.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALHKLFGGRSGAIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWATQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAYRHGIDRYFIRWRDKRHKRHEQFSL
LAWHRIIPAETQEFLSKSGPSIIEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVNEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISQDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGPVKILMLRLESNDLVFTTEPPAAVTGEVVGDVEDAEIE
FVDPEEADEDQAEGDAGLNNDMLAAELEAEKALAGLGFGDAMAMLKSTSDIAEEKPEQEDTESTELPKPD
ASKKGKQQSKPGKARAEKQPQKPEVKEDLSPQDIAKNAPPLANDDPLQALKDVGGGLGDIDFPFDVFNAS
AETACTDATNLEIPDITEPEKQEEQPKPDFVPQEQNSLQNGDFPIFSDSDEPPSWAIEPLPMLTDTPEQT
IPAPDMQHAGKPKELEKDAKTLLSEMLAGYGEASTLLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPEGA
RSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLVDQLSDAVVAAIKDAEASMGGYQEAFELV
SPPGSGVSKNKSAPKQQSRKKTQQQKPEVDAGAGSEQKTKDKSLQQQPKEKQGNVASLVEEQKRKPVQDQ
EKQNVARLPKREAQPVAPKPKVEHERELGHVEVRERDEPEVREFEPPKAKTNPKDINEEDFLPSGVTPEK
ALLMLKDMIQKRSGRWLVTPVLEEDGCLVTSVKAFDMIAGENVGISKHILYGLLSRAQRRPLLKKRQGKL
YLEVDKA

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   15147 GenBank   WP_000178858
Name   traD_FR801_RS26620_pE51_002 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   15148 GenBank   WP_000587426
Name   traC_FR801_RS26695_pE51_002 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: 92489.76 Da        Isoelectric Point: 5.9204

>WP_000587426.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIITIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDQSVGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTSLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRILAKTSKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQHLAQIRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYDDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSQKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSTFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSDGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRKQAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(449-809)

TraC protein (TraC_F_IV)

(21-255)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 44874..69978

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FR801_RS26605 (FR801_26605) 40914..41147 - 234 WP_001191893 hypothetical protein -
FR801_RS26610 (FR801_26610) 41129..41746 - 618 WP_079778879 hypothetical protein -
FR801_RS26615 (FR801_26615) 41914..44877 + 2964 WP_000909947 MobH family relaxase -
FR801_RS26620 (FR801_26620) 44874..46739 + 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
FR801_RS26625 (FR801_26625) 46789..47334 + 546 WP_023356350 hypothetical protein -
FR801_RS26630 (FR801_26630) 47291..47920 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
FR801_RS26635 (FR801_26635) 47931..48377 + 447 WP_000122583 hypothetical protein -
FR801_RS26640 (FR801_26640) 48387..48764 + 378 WP_000869260 hypothetical protein -
FR801_RS26645 (FR801_26645) 48764..49426 + 663 WP_000045163 hypothetical protein -
FR801_RS27970 49605..49748 + 144 WP_023356351 hypothetical protein -
FR801_RS26650 (FR801_26650) 49761..50108 + 348 WP_001102160 hypothetical protein -
FR801_RS26655 (FR801_26655) 50251..50532 + 282 WP_000805626 type IV conjugative transfer system protein TraL traL
FR801_RS26660 (FR801_26660) 50529..51155 + 627 WP_001049718 TraE/TraK family type IV conjugative transfer system protein traE
FR801_RS26665 (FR801_26665) 51139..52056 + 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
FR801_RS26670 (FR801_26670) 52053..53369 + 1317 WP_000595204 TraB/VirB10 family protein traB
FR801_RS26675 (FR801_26675) 53366..53944 + 579 WP_000794193 type IV conjugative transfer system lipoprotein TraV traV
FR801_RS26680 (FR801_26680) 53948..54340 + 393 WP_012766327 TraA family conjugative transfer protein -
FR801_RS26685 (FR801_26685) 54541..60027 + 5487 WP_079778880 Ig-like domain-containing protein -
FR801_RS26690 (FR801_26690) 60176..60883 + 708 WP_001259344 DsbC family protein -
FR801_RS26695 (FR801_26695) 60880..63327 + 2448 WP_000587426 type IV secretion system protein TraC virb4
FR801_RS26700 (FR801_26700) 63342..63659 + 318 WP_000364398 hypothetical protein -
FR801_RS26705 (FR801_26705) 63656..64186 + 531 WP_000672456 S26 family signal peptidase -
FR801_RS26710 (FR801_26710) 64149..65417 + 1269 WP_001553264 TrbC family F-type conjugative pilus assembly protein traW
FR801_RS26715 (FR801_26715) 65414..66091 + 678 WP_000577801 EAL domain-containing protein -
FR801_RS26720 (FR801_26720) 66085..67089 + 1005 WP_000911304 TraU family protein traU
FR801_RS26725 (FR801_26725) 67240..69978 + 2739 WP_060446867 conjugal transfer mating pair stabilization protein TraN traN
FR801_RS26730 (FR801_26730) 70017..70877 - 861 WP_000679674 hypothetical protein -
FR801_RS26735 (FR801_26735) 70989..71639 - 651 WP_000796641 hypothetical protein -
FR801_RS26740 (FR801_26740) 71930..72250 + 321 WP_000547567 hypothetical protein -
FR801_RS26745 (FR801_26745) 72561..72746 + 186 WP_001186892 hypothetical protein -
FR801_RS26750 (FR801_26750) 72967..73935 + 969 WP_001553257 AAA family ATPase -
FR801_RS26755 (FR801_26755) 73947..74852 + 906 WP_000739141 hypothetical protein -

Host bacterium

ID   20909 GenBank   NZ_CP042536
Plasmid name   pE51_002 Incompatibility group   IncA/C
Plasmid size   140460 bp Coordinate of oriT [Strand]   46790..46940 [+]
Host baterium   Citrobacter freundii strain E51

Cargo genes

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