Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115754
Name   oriT_pIMP69_000369 in_silico
Organism   Providencia huaxiensis strain WCHPr000369
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP031122 (120744..120894 [-], 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_pIMP69_000369
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10089 GenBank   WP_001337757
Name   mobH_CYG50_RS01175_pIMP69_000369 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   11781 GenBank   WP_000637386
Name   traC_CYG50_RS01095_pIMP69_000369 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   11782 GenBank   WP_000178856
Name   traD_CYG50_RS01170_pIMP69_000369 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: 97619..122810

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CYG50_RS01035 (CYG50_01030) 92746..93654 - 909 WP_000739139 hypothetical protein -
CYG50_RS01040 (CYG50_01035) 93665..94633 - 969 WP_000085162 AAA family ATPase -
CYG50_RS01045 (CYG50_01040) 94853..95038 - 186 WP_001186917 hypothetical protein -
CYG50_RS01050 (CYG50_01045) 95342..95662 - 321 WP_000547566 hypothetical protein -
CYG50_RS01055 (CYG50_01050) 95956..96597 + 642 WP_000796664 hypothetical protein -
CYG50_RS01060 (CYG50_01055) 96939..97580 + 642 WP_223854615 hypothetical protein -
CYG50_RS01065 (CYG50_01060) 97619..100429 - 2811 WP_001909286 conjugal transfer mating pair stabilization protein TraN traN
CYG50_RS01070 (CYG50_01065) 100533..101537 - 1005 WP_043940352 TraU family protein traU
CYG50_RS01075 (CYG50_01070) 101537..102208 - 672 WP_001337754 EAL domain-containing protein -
CYG50_RS01080 (CYG50_01075) 102205..103470 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
CYG50_RS01085 (CYG50_01080) 103433..103963 - 531 WP_102139632 S26 family signal peptidase -
CYG50_RS01090 (CYG50_01085) 103960..104277 - 318 WP_000351984 hypothetical protein -
CYG50_RS01095 (CYG50_01090) 104292..106739 - 2448 WP_000637386 type IV secretion system protein TraC virb4
CYG50_RS01100 (CYG50_01095) 106736..107443 - 708 WP_001259347 DsbC family protein -
CYG50_RS01105 (CYG50_01100) 107592..113123 - 5532 WP_085281193 Ig-like domain-containing protein -
CYG50_RS01110 (CYG50_01105) 113324..113716 - 393 WP_000479535 TraA family conjugative transfer protein -
CYG50_RS01115 (CYG50_01110) 113720..114298 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
CYG50_RS01120 (CYG50_01115) 114295..115608 - 1314 WP_024131605 TraB/VirB10 family protein traB
CYG50_RS01125 (CYG50_01120) 115608..116525 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
CYG50_RS01130 (CYG50_01125) 116509..117135 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
CYG50_RS01135 (CYG50_01130) 117132..117413 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
CYG50_RS01140 (CYG50_01135) 117558..117923 - 366 WP_001052531 hypothetical protein -
CYG50_RS22815 117935..118078 - 144 WP_001275801 hypothetical protein -
CYG50_RS01145 (CYG50_01140) 118259..118921 - 663 WP_001231463 hypothetical protein -
CYG50_RS01150 (CYG50_01145) 118921..119298 - 378 WP_000869261 hypothetical protein -
CYG50_RS23370 119540..119716 - 177 WP_169342285 hypothetical protein -
CYG50_RS01160 (CYG50_01155) 119764..120393 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
CYG50_RS23375 (CYG50_01160) 120350..120895 - 546 WP_000228720 hypothetical protein -
CYG50_RS01170 (CYG50_01165) 120945..122810 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
CYG50_RS01175 (CYG50_01170) 122807..125785 - 2979 WP_001337757 MobH family relaxase -
CYG50_RS01180 (CYG50_01175) 125953..126570 + 618 WP_001249396 hypothetical protein -
CYG50_RS01185 (CYG50_01180) 126552..126785 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   16187 GenBank   NZ_CP031122
Plasmid name   pIMP69_000369 Incompatibility group   IncA/C2
Plasmid size   164992 bp Coordinate of oriT [Strand]   120744..120894 [-]
Host baterium   Providencia huaxiensis strain WCHPr000369

Cargo genes

Drug resistance gene   blaTEM-1B, rmtB, tet(G), floR, qacE, aadA2, dfrA12, blaIMP-8, blaCTX-M-14, sul2, aph(3'')-Ib, aph(6)-Id, aac(3)-IId
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -