Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102219
Name   oriT_pInC NODE_15 in_silico
Organism   Proteus mirabilis strain LBUEL-H11
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_QGGA01000015 (68944..69094 [-], 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_pInC NODE_15
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1714 GenBank   WP_001337757
Name   mobH_DKM25_RS15640_pInC NODE_15 insolico UniProt ID   A0A709FRI2
Length   992 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109581.85 Da        Isoelectric Point: 4.8956

>WP_001337757.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A709FRI2


T4CP

ID   1302 GenBank   WP_000637386
Name   traC_DKM25_RS15560_pInC NODE_15 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   1303 GenBank   WP_000178856
Name   traD_DKM25_RS15635_pInC NODE_15 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: 45819..71010

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
DKM25_RS15500 40946..41854 - 909 WP_000739139 hypothetical protein -
DKM25_RS15505 41865..42833 - 969 WP_000085162 AAA family ATPase -
DKM25_RS15510 43053..43238 - 186 WP_001186917 hypothetical protein -
DKM25_RS15515 43542..43862 - 321 WP_000547566 hypothetical protein -
DKM25_RS15520 44156..44797 + 642 WP_000796664 hypothetical protein -
DKM25_RS15525 44920..45780 + 861 WP_000709517 hypothetical protein -
DKM25_RS15530 45819..48617 - 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
DKM25_RS15535 48733..49737 - 1005 WP_043940352 TraU family protein traU
DKM25_RS15540 49737..50408 - 672 WP_001337754 EAL domain-containing protein -
DKM25_RS15545 50405..51670 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
DKM25_RS15550 51633..52163 - 531 WP_001010738 S26 family signal peptidase -
DKM25_RS15555 52160..52477 - 318 WP_000351984 hypothetical protein -
DKM25_RS15560 52492..54939 - 2448 WP_000637386 type IV secretion system protein TraC virb4
DKM25_RS15565 54936..55643 - 708 WP_001259347 DsbC family protein -
DKM25_RS15570 55792..61323 - 5532 WP_109829093 Ig-like domain-containing protein -
DKM25_RS15575 61524..61916 - 393 WP_000479535 TraA family conjugative transfer protein -
DKM25_RS15580 61920..62498 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
DKM25_RS15585 62495..63808 - 1314 WP_024131605 TraB/VirB10 family protein traB
DKM25_RS15590 63808..64725 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
DKM25_RS15595 64709..65335 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
DKM25_RS15600 65332..65613 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
DKM25_RS15605 65758..66123 - 366 WP_001052531 hypothetical protein -
DKM25_RS22765 66135..66278 - 144 WP_001275801 hypothetical protein -
DKM25_RS15610 66459..67121 - 663 WP_001231463 hypothetical protein -
DKM25_RS15615 67121..67498 - 378 WP_000869261 hypothetical protein -
DKM25_RS22770 67740..67916 - 177 WP_169342285 hypothetical protein -
DKM25_RS15625 67964..68593 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
DKM25_RS15630 68550..69095 - 546 WP_000228720 hypothetical protein -
DKM25_RS15635 69145..71010 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
DKM25_RS15640 71007..73985 - 2979 WP_001337757 MobH family relaxase -
DKM25_RS15645 74153..74770 + 618 WP_001249396 hypothetical protein -
DKM25_RS15650 74752..74985 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   2663 GenBank   NZ_QGGA01000015
Plasmid name   pInC NODE_15 Incompatibility group   -
Plasmid size   98238 bp Coordinate of oriT [Strand]   68944..69094 [-]
Host baterium   Proteus mirabilis strain LBUEL-H11

Cargo genes

Drug resistance gene   sul2, aph(3'')-Ib, aph(6)-Id, blaTEM-1B, aac(3)-IId
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -